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GENE CARD

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EST count

27 results

Library Name Percentage Expression
Ciona intestinalis whole animal Ciona intestinalis whole animal 0 clone(s) / 0
Nori Satoh unpublished cDNA library Nori Satoh unpublished cDNA library 0 clone(s) / 5,577
Nori Satoh unpublished cDNA library, young adult Nori Satoh unpublished cDNA library, young adult 0 clone(s) / 31,366
Nori Satoh unpublished cDNA library, cleavage stage embryo Nori Satoh unpublished cDNA library, cleavage stage embryo 8 clone(s) / 15,579
Nori Satoh unpublished cDNA library, egg Nori Satoh unpublished cDNA library, egg 0 clone(s) / 31,100
Nori Satoh unpublished cDNA library, larva Nori Satoh unpublished cDNA library, larva 0 clone(s) / 26,704
Nori Satoh unpublished cDNA library, tailbud embryo Nori Satoh unpublished cDNA library, tailbud embryo 0 clone(s) / 26,680
directional larval cDNA library directional larval cDNA library 0 clone(s) / 39
Ascidian hemocytes cDNA library Ascidian hemocytes cDNA library 0 clone(s) / 0
K. Inaba unpublished cDNA library, testis K. Inaba unpublished cDNA library, testis 0 clone(s) / 5,468
Stratagene UniZAP whole-larva library Stratagene UniZAP whole-larva library 0 clone(s) / 0
Ciona intestinalis larva Ciona intestinalis larva 0 clone(s) / 0
Nori Satoh unpublished cDNA library, blood cells Nori Satoh unpublished cDNA library, blood cells 0 clone(s) / 29,579
Nori Satoh unpublished cDNA library, endostyle Nori Satoh unpublished cDNA library, endostyle 0 clone(s) / 2,556
Nori Satoh unpublished cDNA library, cleaving embryo Nori Satoh unpublished cDNA library, cleaving embryo 3 clone(s) / 16,939
Nori Satoh unpublished cDNA library, gastrula and neurula Nori Satoh unpublished cDNA library, gastrula and neurula 5 clone(s) / 25,258
Nori Satoh unpublished cDNA library, gonad Nori Satoh unpublished cDNA library, gonad 0 clone(s) / 16,936
Nori Satoh unpublished cDNA library, neural complex Nori Satoh unpublished cDNA library, neural complex 0 clone(s) / 10,463
Nori Satoh unpublished cDNA library, heart Nori Satoh unpublished cDNA library, heart 0 clone(s) / 13,243
Yutaka Satou unpublished cDNA library, adult digestive gland Yutaka Satou unpublished cDNA library, adult digestive gland 0 clone(s) / 17,765
Yutaka Satou unpublished cDNA library, embryo whole animal Yutaka Satou unpublished cDNA library, embryo whole animal 0 clone(s) / 17,872
Yutaka Satou unpublished cDNA library, mature adult whole animal Yutaka Satou unpublished cDNA library, mature adult whole animal 0 clone(s) / 107,314
Nori Satoh unpublished cDNA library, juvenile whole animal Nori Satoh unpublished cDNA library, juvenile whole animal 0 clone(s) / 24,372
Nori Satoh unpublished cDNA library, mature adult whole animal Nori Satoh unpublished cDNA library, mature adult whole animal 0 clone(s) / 17,126
Ciona intestinalis whole animal stage3 juvenile Ciona intestinalis whole animal stage3 juvenile 0 clone(s) / 3,798
Yutaka Satou unpublished library (cicx) Yutaka Satou unpublished library (cicx) 0 clone(s) / 2,031
Gateway compatible cien cDNA library, Ciona intestinalis mixed embryonic stages (Egg to Neurula) Gateway compatible cien cDNA library, Ciona intestinalis mixed embryonic stages (Egg to Neurula) 26 clone(s) / 188,431

RNA-Seq transcriptome profiles (by Experiment)

3 results

OVERVIEW

   Expression profile summary from all experiments in WT and mutant conditions:
FPKM & RPKM

Click here to see the RNA-Seq Pipeline Protocol.
You can show/hide lines in the charts by clicking on it in the legend part.
You can see more details by clicking on a point and then, on the link which will appear.

Be careful, FPKM & RPKM does not permit you to compare a gene across different conditions or experiments.

Download FPKM & RPKM data

OVERVIEW

   Expression profile summary from all experiments in WT and mutant conditions:
Relative Log Expression RLE

Be careful, RLE and 2RLE does not permit you to compare a gene across different experiments.

Download RLE Relative Log Expression data

RNA-Seq Experiment n°34135

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Oocytes of a single individual of Ciona intestinalis (Roscoff, France) were fertilized by a mixture of sperm of two individuals and development was followed microscopically. Embryos were snapfrozen in liquid nitrogen at the appropriate stage and kept at -80°C. Samples at stage 0, 8, 12, 15, 21, 26 were collected from the same fertilzation, while sample from stage 11 was independently collected from a different individual. Total RNA was prepared with the RNA II kit of Magerey Nagel and the quality was checked with the Bioanalyzer, all samples had a RIN value of higher than 9. Strand specific libraries were constructed and the sequencing (50PE) was performed with Illumina HiSeq 2000 technology (BGI, Hong Kong, China). Reads were aligned onto C.robusta genome and considered to reflect the expression of the C.robusta orthologous genes.

Assay platform Illumina HiSeq 2000
Layout Paired-end
Stranded Yes
Read length 49
Normalized data types
  • FPKM
  • RLE
Wild type - Replica 1
Territories whole embryo -
Biomaterial(s) C. robusta formely Ciona int. type A, Stage 0 (Unfertilized egg)
C. robusta formely Ciona int. type A, Stage 8 (64-cell)
C. robusta formely Ciona int. type A, Stage 11 (early gastrula)
C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)
C. robusta formely Ciona int. type A, Stage 15 (mid neurula)
C. robusta formely Ciona int. type A, Stage 21 (mid tailbud I)
C. robusta formely Ciona int. type A, Stage 26 (hatching larva)
Wild type - Replica 2
Territories whole embryo -
Biomaterial(s) C. robusta formely Ciona int. type A, Stage 0 (Unfertilized egg)
C. robusta formely Ciona int. type A, Stage 8 (64-cell)
C. robusta formely Ciona int. type A, Stage 11 (early gastrula)
C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)
C. robusta formely Ciona int. type A, Stage 15 (mid neurula)
C. robusta formely Ciona int. type A, Stage 21 (mid tailbud I)
C. robusta formely Ciona int. type A, Stage 26 (hatching larva)

RNA-Seq Experiment n°34138

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Ciona robusta adults were obtained from the National Bio-Resource Project for Ciona (NBRP, Japan). 50 unperturbed and Foxd-morphant embryos were collected at the 32-, 64-, and 112-cell stages. RNA was extracted using a Dynabeads mRNA DIRECT Purification Kit (Thermo Fischer Scientific) and libraries were made with an Ion Total RNA-Seq kit ver 2 (Thermo Fischer Scientific). The libraries were sequenced with an Ion PGM instrument (Thermo Fischer Scientific).

Assay platform Ion Torrent PGM
Layout Single-end
Stranded Yes
Read length 20-365
Normalized data types
  • RPKM
Wild type
Territories whole embryo -
Biomaterial(s) C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)
C. robusta formely Ciona int. type A, Stage 8 (64-cell)
C. robusta formely Ciona int. type A, Stage 10 (112-cell)
Mutant
Deregulated molecule(s) KH2012:KH.C8.890 -
Territories whole embryo -
Biomaterial(s) C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)
C. robusta formely Ciona int. type A, Stage 8 (64-cell)
C. robusta formely Ciona int. type A, Stage 10 (112-cell)

RNA-Seq Experiment n°34139

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The purpose of this project is to identify genes positively and negatively regulated by signaling molecules that belongs to the TGFbeta superfamily.

Assay platform Illumina HiSeq 2500
Layout Single-end
Stranded Yes
Read length 101
Normalized data types
  • RPKM
Wild type
Territories whole embryo -
Biomaterial(s) C. robusta formely Ciona int. type A, Stage 13 (late gastrula)
Mutant 1
Deregulated molecule(s) KH2012:KH.C4.125 -
Territories whole embryo -
Biomaterial(s) C. robusta formely Ciona int. type A, Stage 13 (late gastrula)
Mutant 2
Deregulated molecule(s) KH2012:KH.C2.573 -
Territories whole embryo -
Biomaterial(s) C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

In Situ Experiment Data

137 results

Experiment data ( results)

C. robusta formely Ciona int. type A, Stage 1 (One cell)

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Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :ZicL.
Expression pattern : No signal was detected

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) No expression -

C. robusta formely Ciona int. type A, Stage 5a (early 16-cell)

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Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :ZicL.
Expression pattern : No distinct zygotic signal was detected

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) No expression -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view (anterior is up) of a 32-cell stage embryo stained for Ci-ZicL-B mRNA by in situ hybridization.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a late-32 cell stage embryo stained with ZicL expression. Red arrow point to the NN cells, blue arrow point to the E cell.
Original annotation: NN cell formation at the 32-cell stage is marked by expression of zicL.
Aniseed annotation: Expression is also observed in B6.2 and B6.4 cell pairs.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a late-32 cell stage embryo stained with ZicL expression after BIO treatment at the late 16-cell stage. Red arrow point to the NN cells, blue arrow point to the E cell.
Original annotation: No expression either in NN or E cells.
Aniseed annotation: Expression is observed in B6.4 cell pair.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a late 32-cell stage embryo marked with ZicL after injection of TCF∆C at the 8-cell stage in A4.1 cell. The red arrow points the NN cells and the blue arrow the E cells. The green dashed line marks the region containing the cells from the A4.1 cell lineage.
Original annotation: Loss of expression in A6.2 and A6.4 cells (NN cells).
Aniseed annotation:Normal expression in B6.2 and B6.4 cell pairs.
(+HD photo)

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a late 32-cell stage embryo marked with ZicL after injection of TCF∆C at the 16-cell stage in A5.1 cell. The red arrow points the NN cells and the blue arrow the E cells. The green dashed line marks the region containing the cells from the A5.1 cell lineage.
Original annotation: Expression in A6.1 cell (E cell) as well as in A6.2 and A6.4 cells (NN cells).
Aniseed annotation:No expression in the other A6.1 cell and normal expression in the other A6.2 and A6.4 cell as well as the B6.2 and B6.4 cell pairs.
(+HD photo)

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.1 cell pair - A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a late-32 cell stage embryo stained with ZicL expression after Wnt5-MO treatment on the unfertelized egg. Red arrow point to the NN cells.
Original annotation: No expression either in NN.
Aniseed annotation: Expression is observed in B6.2 and B6.4 cell pairs.
(+HD photo)

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a late-32 cell stage embryo stained with zicL expression after injection of TCF∆C at the 16-cell stage in A5.3 cell and BIO treatment at the late 8-cell stage. The green dashed line marks the region containing the cells from the a5.3 cell lineage.
Original annotation: Expression of zicL in cells from the a5.3 cell lineage.
Aniseed annotation: Expression is observed in a6.5 and a6.6 cells as well as in B6.4 cell pair.
(+HD photo)

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) a6.5 cell pair - a6.6 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a late-32 cell stage embryo stained with ZicL expression after NotRNA treatment.
Original annotation: No expression either in NN or E cells.
Aniseed annotation: Expression is not observed in the entire embryo.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) No expression -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lacZ transgene containing the -658bp of the 5' flanking Ci-ZicLB promoter sequence with mutations of the putative Fox2, Fox4 and Fox5 binding sites. The expression of lacZ in A6.2 and A6.4 was diminished but not in B6.2 and B6.4. The expression was not completely abolished even in A-line cells (arrowhead).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lacZ transgene containing the -658bp of the 5' flanking Ci-ZicLB promoter sequence within an internal deletion was made between the -295bp to -205bp. This transgene was expressed in B6.2 and B6.4, but not in A6.2 and A6.4. This transgene lacks the two putative Fox-binding site Fox-2 and Fox-3. The region between the deletion is needed to the expression in A6.2 and A6.4 cells at the 32-cell stage.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lacZ transgene containing the -127bp of the 5' flanking Ci-ZicLB promoter sequence (-127Z construct). The expression is detected only in the B6.4 cells.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lacZ transgene containing the -658bp of the 5' flanking Ci-ZicLB promoter sequence (-658Z construct). The expression is detected in the A6.2, A6.4, B6.2, B6.4 cells like in the endogenous expression pattern (see control).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lacZ transgene containing the -658bp of the 5' flanking Ci-ZicLB promoter sequence with mutation of the putative Fox-2 binding site (Fox2-mut construct). This transgene did not diminish the expression in the B6.2, B6.4 , A6.2 and A6.4 cells.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lacZ transgene containing the -658bp of the 5' flanking Ci-ZicLB promoter sequence which contains an internal deletion between -127bp and -89bp (DeltaNP construct). The strong expression was comparable to -658bp transgene without deletion.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lacZ transgene containing the -658bp of the 5' flanking Ci-ZicLB promoter sequence which contains an internal deletion between -205bp and -89bp (DeltaSnP construct). The expression was faint in B6.4 and not observed in B6.2. These results suggest that the region between nucleotide positions -205 and -89 is an enhancer module necessary for activation in B6.2 and B6.4.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lac Z transgene containing the -295bp of the 5' flanking Ci-ZicLB promoter sequence (-295Z construct).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lacZ transgene containing the -658bp of the 5' flanking Ci-ZicLB promoter sequence which contains an internal deletion between -205bp and -127bp (DeltaSnN). The expression was weak but detected not only on A6.2 and A6.4 but also in B6.2 and B6.4.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lacZ transgene containing the -658bp of the 5' flanking Ci-ZicLB promoter sequence containing a mutation of Ets4 binding site (CGATCGGAAGTCA into CGATCAAGAGTCA)(Ets-mut construct). This transgene did not diminish the expression in the notochord/mesenchyme lineage, but resulted in an unexpected ectopic activation in the a-line presumptive ectoderm blastomeres. The ectopic expression was observed in a6.5,a6.6,a6.7, and a6.8, which give rise to the epidermis and central nervous system.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - a6.5 cell pair - a6.6 cell pair - a6.7 cell pair - a6.8 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lacZ transgene containing the -205bp of the 5' flanking Ci-ZicLB promoter sequence (-205Z construct). This transgene was expressed in B6.2 and B6.4, but not in A6.2 and A6.4. This truncated transgene lacks the two putative Fox-binding site Fox2 and Fox3.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lacZ transgene containing the -658bp of the 5' flanking Ci-ZicLB promoter sequence (-658Z construct). The expression is detected in the A6.2, A6.4, B6.2, B6.4 cells like in the endogenous expression pattern (see control).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6a (early 32-cell)

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Vegetal view of a 32-cell stage embryo, electroporated with a lacZ transgene containing the -259bp of the 5' flanking Ci-ZicLB promoter sequence (-259Z construct). This transgene gave similar expression pattern at the 32-cell stage :A6.2, A6.4, B6.2, B6.4, as the -658Z although the enhancer activity gradually decreased as the enhancer was shortened. This transgene lacks the two putative Fox-binding sites Fox2 and Fox3.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Vegetal view of a WT Ciona robusta 32-cell stage embryo probed for Zic-r.b expression.
Zic-r.b is expressed in A6.2, A6.4, B6.2 and B6.4 blastomers.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Vegetal view of a Ciona robusta 32-cell stage embryo probed for Zic-r.b expression and injected with Fgf9/16/20 MO.
Zic-r.b is expressed only in B6.4 blastomer pair. Zic-r.b expression is lost in A-line cells and B6.2.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Vegetal view of a Ciona robusta 32-cell stage embryo probed for Zic-r.b expression and injected with Foxa.a.
Zic-r.b is expressed in B6.4 blastomer pair (and weakly in B6.2). Zic-r.b expression is lost in A-line cells and B6.2.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Vegetal view of a Ciona robusta 32-cell stage embryo probed for Zic-r.b expression and injected with Foxd MO.
Zic-r.b is expressed only in B6.4 blastomer pair. Zic-r.b expression is lost in A-line cells and B6.2.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Animal view of a WT Ciona robusta 32-cell stage embryo probed for Zic-r.b expression.
Zic-r.b is expressed in A6.2, A6.4, B6.2 and B6.4 blastomer pairs.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Animal view of a Ciona robusta 32-cell stage embryo probed for Zic-r.b expression and injected with Foxd mRNA.
Zic-r.b is expressed in A7.4, A7.8, A7.3, A7.7, B6.2, B6.4 and a-line cells.
Original comment: Injection of Foxd mRNA resulted in ectopic expression of Zic-r.b in a-line cells at the 32-cell stage.
The green dashed line separates a- from A- lineages.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - a6.5 cell pair - a6.6 cell pair - a6.7 cell pair - a6.8 cell pair - a line - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Animal view of a Ciona robusta 32-cell stage embryo probed for Zic-r.b expression, injected with Foxd mRNA and treated with U0126 from the 16-cell stage.
Zic-r.b weak expression is observed in some a-line and notochord and nerve chord precursors.
Original comment: When Foxd mRNA-injected embryos were treated with U0126, the ectopic expression of Zic-r.b was reduced, mimicking the effect of MEK inhibition on endogenous Zic-r expression.

The green dashed line separates a- from A- lineages.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2* - A6.4 cell pair - a6.5* - a6.7 -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Animal view of a Ciona robusta 32-cell stage embryo probed for Zic-r.b expression, injected with Foxd mRNA and treated with BIO from the 16-cell stage.
Zic-r.b is expressed in B6.4 blastomer pair.
Original comment: When Foxd-mRNA injected embryos were treated from the late 16-cell stage with BIO in order to mimic the second input of nb-catenin activation, Zic-r.b was repressed.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Animal view of a WT Ciona robusta 32-cell stage embryo probed for Zic-r.b expression.
Zic-r.b is expressed in A6.2, A6.4, B6.2 and B6.4 blastomer pairs.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Animal view of a Ciona robusta 32-cell stage embryo probed for Zic-r.b expression and injected with Foxd mRNA.
Zic-r.b is expressed in A6.2, A6.4, B6.2 and B6.4 blastomer pairs, and ectopically in the a lineage.
The green dashed line separates a- from A- lineages.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - a line - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Animal view of a Ciona robusta 32-cell stage embryo probed for Zic-r.b expression and injected with morpholinos against beta-catenin.
Zic-r.b is only expressed in B6.4 blastomer pair.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Animal view of a Ciona robusta 32-cell stage embryo probed for Zic-r.b expression and injected with Foxd mRNA and morpholinos against beta-catenin.
Zic-r.b is expressed in A6.2, A6.4, B6.2 and B6.4 blastomer pairs, and ectopically in the a lineage and A6.1.
Original comment: Injection of Foxd mRNA was able to rescue expression of NN(neural-notochord)-lineage gene Zic-r.b in b-catenin-MO embryos.
The green dashed line separates a- from A- lineages.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.1 cell pair - A6.2 cell pair - A6.4 cell pair - a line - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Animal view of a Ciona robusta 32-cell stage embryo probed for Zic-r.b expression, injected with Foxd mRNA and morpholinos against beta-catenin, and treated with U0126 from the 16-cell stage
Zic-r.b is expressed in B6.4 blastomer pair, and in some cells from the a-lineage or the NN lineage (neural and notochord.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 - A6.4 cell pair - a6.5 - a6.7 - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Vegetal view of a 32-cell stage wild type embryo stained for Ci-ZicL mRNA by in situ hybridization.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :ZicL.
Expression pattern : A6.2, A6.4, B6.2, B6.4

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Vegetal view of a late 32-cell stage embryo. Ci-ZicL is expressed in B6.2, B6.4, A6.2 and A6.4 blastomeres.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Vegetal view of a late 32-cell stage embryo. Effects of overexpression is revealed by whole-mount in situ hydridization. Ci-ZicL expression was detected in B6.2, B6.4, A6.2 and A6.4 blastomeres in Ci-macho1-overexpressing embryos. However, the intensity of signal is weaker than the control.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Vegetal view of a late 32-cell stage embryo. Effects of functionnal suppression of Ci-macho1 is revealed by whole-mount in situ hydridization. Ci-ZicL expression was detected in B6.2, B6.4, A6.2 and A6.4 blastomeres in Ci-macho1-suppressed embryos. However, the intensity of signal is weaker than the control.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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View of a 32-cell stage embryo, showing expression of Ci-ZicL in B6.2, B6.4, A6.2 and A6.4 blastomeres.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Animal and vegetal view of a 32-cell stage embryo, showing expression of Ci-ZicL in Ci-Tbx6b overexpressing embryo.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) whole embryo -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Animal and vegetal view of 32-cell stage embryo, showing expression of Ci-ZicL in Ci-Tbx6c overexpressing embryo.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) whole embryo -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Vegetal view of a 32-cell stage embryo, showing expression of Ci-ZicL in Ci-Tbx6b knockdown embryo.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Vegetal view of a 32-cell stage embryo, showing expression of Ci-ZicL in Ci-Tbx6c knockdown embryo.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Vegetal view of 32-cell stage embryos, showing expression of Ci-ZicL in Ci-Tbx6b/Ci-Tbx6c knockdown embryo.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Original annotation : ZicL expression at the 32-cell stage in control embryos (shown in animal view).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Original annotation : ZicL expression at the 32-cell stage in a BZ1/2 morphant embryo (shown in animal view). Black arrowheads indicate the WT expression of ZicL. No precocious ZicL expression was detected in BZ1/2 morphants at the 32-cell stage.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Original annotation : ZicL expression at the 32-cell stage in a BZ1/2/Hes-a morphant embryo (shown in animal view). Ectopic expression is shown by yellow arrowheads. Black arrowheads indicate the WT expression of ZicL. We found ectopic and precocious ZicL expression in the anterior animal cells of BZ1, BZ2 and Hes-a triple morphants

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - a6.5 cell pair - a6.7 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Original annotation : ZicL expression at the 32-cell stage in a Hes-a morphant embryo (shown in animal view). Ectopic expression is shown by yellow arrowheads. Black arrowheads indicate the expression of ZicL. In embryos injected with only the Hes-a MO, ectopic expression is observed only weakly in a small number of cells. Ectopic expression of ZicL in BZ1/2/Hes-a morphants at the 32-cell stage is dependent on FGF signaling, because this ectopic expression is lost in BZ1/2/Hes-a morphants treated with U0126 (Fig. 3L) and because bFGF treatment evokes ectopic expression in all anterior ectodermal cells of BZ1/2/Hes-a morphants (Fig. 3M,N).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - a6.5 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Original annotation : ZicL expression at the 32-cell stage in BZ1/2/Hes-a morphant embryos treated with U0126 from early 16-cell stage to 32-cell stage (shown in animal views).
Ectopic expression of ZicL in BZ1/2/Hes-a morphants at the 32-cell stage is dependent on FGF signaling, because this ectopic expression is lost in BZ1/2/Hes-a morphants treated with U0126.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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bFGF treatment do not affect ZicL expression at the 32-cell stage.
Original annotation : ZicL expression at the 32-cell stage in an embryos treated with bFGF (shown in animal view).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Original annotation : ZicL expression at the 32-cell stage in BZ1/2/Hes-a morphant embryos treated with bFGF (shown in animal views). Ectopic expression is shown by yellow arrowheads. bFGF treatment evokes ectopic expression in all anterior ectodermal cells of BZ1/2/Hes-a morphants.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A6.2 cell pair - A6.4 cell pair - a6.5 cell pair - a6.6 cell pair - a6.7 cell pair - B6.2 cell pair - B6.4 cell pair - b6.8 cell pair -

C. robusta formely Ciona int. type A, Stage 6b (late 32-cell)

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Conversion to Aniseed format of Ghost database entry from Fujiwara S et al., Mech Dev. 2002; 112Gene name: 115-127. Original annotation: . Expression pattern: not clear

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B6.2 cell pair - B6.4 cell pair -

C. robusta formely Ciona int. type A, Stage 7 (44-cell)

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Vegetal view (anterior is up)of a 44-cell stage embryo stained for Ci-ZicL-B mRNA by in situ hybridization.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B6.3 cell pair - B6.4 cell pair - B7.3 cell pair - B7.4 cell pair -

C. robusta formely Ciona int. type A, Stage 7 (44-cell)

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Vegetal view of a 44-cell stage embryo, electroporated with a lacZ transgene containing the -658bp of the 5' flanking Ci-ZicLB promoter sequence (658Z construct). The expression is detected in the A7.4, A7.3, A7.7, A7.8, B7.3, B7.4 cells like in the endogenous expression pattern (see control). Howewer a delicate spatiotemporal difference in the amount of lacZ transcript was not detected, this was probably because lacZ mRNA was relatively stable, and because the transgene was unevenly distributed between blastomeres.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair -

C. robusta formely Ciona int. type A, Stage 7 (44-cell)

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Vegetal view of a 44-cell stage embryo, electroporated with a lacZ transgene containing the -205bp of the 5' flanking Ci-ZicLB promoter sequence (-205Z construct). The expression is detected in all the daughter cells of A6.2, A6.4, B6.2 and B6.4.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a WT Ciona robusta 64-cell stage embryo probed for Zic-r.b expression.
Zic-r.b is expressed in A7.4, A7.8, A7.3, A7.7, B7.3 and B7.4 blastomer pairs.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a Ciona robusta 64-cell stage embryo probed for Zic-r.b expression and treated with U016 from the 16-cell stage.
Zic-r.b is expressed in A7.4, A7.8, A7.3, A7.7, B7.3 and B7.4 blastomer pairs, as in WT conditions.
Original comment: In FGF-inhibited embryos, Zic-r.b expression recovered at the 64-cell stage.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a Ciona robusta 64-cell stage embryo probed for Zic-r.b expression and injected with morpholinos against Foxa.a.
Zic-r.b is expressed in B7.5, B7.8 and B7.4 blastomer pairs, as in WT conditions.
Original comment: In Foxa.a-inhibited embryos, Zic-r.b continues to be repressed in the notochord and neural (NN)-cell lineages at the 64-cell stage.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B7.4 cell pair - B7.5 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a Ciona robusta 64-cell stage embryo probed for Zic-r.b expression and injected with morpholinos against Foxd.
Zic-r.b is expressed in B7.5, B7.8 and B7.4 blastomer pairs, as in WT conditions.
Original comment: In Foxd-inhibited embryos, Zic-r.b continues to be repressed in the notochord and neural (NN)-cell lineages at the 64-cell stage.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B7.4 cell pair - B7.5 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a 64-cell stage wild type embryo stained for Ci-ZicL mRNA by in situ hybridization.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a 64-cell stage wild type embryo stained for Ci-ZicL mRNA by in situ hybridization.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :ZicL.
Expression pattern : A7.3, A7.4, A7.7, A7.8, B7.3, B7.4, B7.5, B7.7, B7.8

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a 64-cell stage embryo showing Ci-ZicL expression.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a 64-cell stage embryo. Ci-ZicL expression was examined in embryos that expressed Ci-FoxD/Ci-nodal transgene.

Original annotation:
The Ci-FoxD/Ci-nodal transgene did not affect Ci-ZicL expression.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a 64-cell stage embryo. Ci-ZicL expression was examined in SB431542-treated embryos.

Original annotation:
SB431542 treatment did not affect Ci-ZicL expression.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a 64-cell stage embryo. Ci-ZicL expression was examined in embryos that expressed Ci-FoxD/Ci-lefty transgene.

Original annotation:
The Ci-FoxD/Ci-lefty transgene did not affect Ci-ZicL expression.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a late-64 cell stage embryo stained with ZicL expression. Red arrow point to the NN cells, blue arrow point to the E cell.
Original annotation: Expression in NN cells.
Aniseed annotation: Expression is also observed in B7.3, B7.4, B7.5, B7.7 and B7.8 cell pairs.
(+HD photo)

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a late-64 cell stage embryo stained with ZicL expression after BIO treatment at the late 16-cell stage. Red arrow point to the NN cells, blue arrow point to the E cell.
Original annotation: No expression either in NN or E cells.
Aniseed annotation: Expression is observed in B7.7 and B7.8 cell pairs.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a late-64 cell stage embryo stained with ZicL expression after BIO treatment at the late 8-cell stage.
Original annotation: No expression in NN.
Aniseed annotation: Expression is observed in B7.7 and B7.8 cell pairs.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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ZicL expression at the 64-cell stage in a control embryo (shown in anterior view, animal pole up).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Original annotation : ZicL expression at the 64-cell stage in a BZ1/2 morphant embryo (shown in anterior views; animal pole up). In BZ1/2 morphants, ZicL is precociously expressed at the 64-cell stage in the bi-potential progenitors a7.9 and a7.10.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) a7.10 cell pair - A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - a7.9 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Original annotation : ZicL expression at the 64-cell stage in BZ1/2 morphant embryos (shown in anterior views; animal pole up). The embryo is treated with U0126. Ectopic ZicL expression is rarely observed in BZ1/2 morphants treated with the MEK inhibitor U0126 at the 44-cell stage.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.3 cell pair - A7.4 cell pair - A7.5 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Original annotation : ZicL expression at the 64-cell stage in embryos treated with bFGF at the 44-cell stage (shown in anterior views; animal pole up). These embryos do not show ectopic ZicL expression.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Original annotation : ZicL expression at the 64-cell stage in BZ1/2 morphant embryos treated with bFGF at 44-cell stage (shown in anterior views; animal pole up).
BZ1/2 morphant embryos treated with recombinant human basic fibroblast growth factor (bFGF) at the 44-cell stage ectopically express ZicL in a7.9/a7.10 and in neighboring epidermal/brain progenitor cells (a7.13/a7.14).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) a7.10 cell pair - a7.13 cell pair - a7.14 cell pair - A7.3 cell pair - A7.4 cell pair - A7.7 cell pair - A7.8 cell pair - a7.9 cell pair - B7.3 cell pair - B7.4 cell pair - B7.5 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 8 (64-cell)

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Vegetal view of a 64-cell stage embryo, electroporated with a lacZ transgene containing the -205bp of the 5' flanking Ci-ZicLB promoter sequence which contains mutations of Fox4 and Fox5 (Fox 4/5-mut construct). The expression was only in B-line cells. The result suggests that Fox transcription factor(s) are necessary in the enhancer module in A-line cells but not in B-line cells.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B7.3 cell pair - B7.4 cell pair - B7.7 cell pair - B7.8 cell pair -

C. robusta formely Ciona int. type A, Stage 9 (76-cell)

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Vegetal view (anterior is up) of a 76-cell stage embryo stained for Ci-ZicL-B mRNA by in situ hybridization (Nc, nerve cord; Mu, muscle, No, notochord, Me, mesenchyme).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B7.7 cell pair - B8.5 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Vegetal view of a 110-cell stage wild type embryo stained for Ci-ZicL mRNA by in situ hybridization.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - a8.17 cell pair - a8.19 cell pair - a8.25 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - b8.17 cell pair - b8.19 cell pair - B8.5 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Vegetal view of a 110-cell stage embryo probed for Zicl expression following egg micro-injection of a FGF9/16/20 MO. ZicL was down-regulated in a-line neural cells and b-line neural cells.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Vegetal view of a 110-cell stage embryo probed for ZicL expression following egg micro-injection of a FoxD-a/b MO. ZicL was down-regulated in a-line neural cells and A-line nerve cord cells.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - b8.17 cell pair - b8.19 cell pair - B8.5 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Vegetal view of a 110-cell stage embryo probed for ZicL expression following egg micro-injection of a FoxA-a MO. ZicL was down-regulated in A-line nerve cord cells and a-line neural cells.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - b8.17 cell pair - b8.19 cell pair - B8.5 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Conversion to Aniseed format of data from Yutaka Satous gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :ZicL.
Expression pattern : A8.5, A8.6, A8.7, A8.8, A8.13, A8.14, A8.15, A8.16, B8.5, B8.7, B8.8, B7.5, B7.7, B8.15, B8.16, a8.17, a8.18, a8.19, a8.20, a8.21, a8.22, a8.23, a8.25, a8.26, a8.27, a8.28.
Comment : The expression in B8.5, B8.7 and B8.8 becomes weaker.

Aniseed annotation :
Expression is also seen in a8.23.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - a8.17 cell pair - a8.18 cell pair - a8.19 cell pair - a8.20 cell pair - a8.21 cell pair - a8.22 cell pair - a8.23 cell pair - a8.25 cell pair - a8.26 cell pair - a8.27 cell pair - a8.28 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Vegetal view (anterior is up) of a 32-cell stage embryo stained for Ci-ZicL-B mRNA by in situ hybridization (Nc, nerve cord; Mu, muscle, No, notochord).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B7.7 cell pair - B8.5 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Vegetal view (anterior is up) of a 32-cell stage embryo stained for Ci-ZicL-B mRNA by in situ hybridization. Green arrowheads show the a-line presumptive CNS cells.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - a8.17 cell pair - a8.19 cell pair - a8.25 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B7.7 cell pair - b8.17 cell pair - b8.19 cell pair - B8.5 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Vegetal view of a 110-Cell stage embryo stained for Ci-ZicL mRNA by in situ hybridization.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - a8.17 cell pair - a8.18 cell pair - a8.19 cell pair - a8.20 cell pair - a8.21 cell pair - a8.22 cell pair - a8.23 cell pair - a8.25 cell pair - a8.26 cell pair - a8.27 cell pair - a8.28 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Aniseed Comment : update of annotation of (Imai et al.,2004), based on (Imai et al.,2006).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - a8.17 cell pair - a8.19 cell pair - a8.25 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - b8.17 cell pair - b8.19 cell pair - B8.5 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Conversion to Aniseed format of Ghost database entry from Fujiwara S et al., Mech Dev. 2002; 112Gene name: 115-127. Original annotation: . Expression pattern: Mesenchyme Notochord

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.5 cell pair - A8.6 cell pair - B7.7 cell pair - B8.5 cell pair - B8.6 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Conversion to Aniseed format of Ghost database entry from Fujiwara S et al., Mech Dev. 2002; 112Gene name: 115-127. Original annotation: . Expression pattern: not clear.

Aniseed annotation :
Annotation was completed.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - a8.17 cell pair - a8.18 cell pair - a8.19 cell pair - a8.20 cell pair - a8.21 cell pair - a8.22 cell pair - a8.23 cell pair - a8.25 cell pair - a8.26 cell pair - a8.27 cell pair - a8.28 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Vegetal view of a 110-cell stage embryo, electroporated with a lacZ transgene containing the -658bp of the 5' flanking Ci-ZicLB promoter sequence (-658Z construct). The expression is detected in the notochord, mesenchyme, muscles and nerve cord like in the endogenous expression pattern (see control). Howewer a delicate spatiotemporal difference in the amount of lacZ transcript was not detected, this was probably because lacZ mRNA was relatively stable, and because the transgene was unevenly distributed between blastomeres (Nc, nerve cord; Mu, muscle; Me, mesenchyme; No, notochord).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B7.7 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 10 (112-cell)

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Vegetal view of a 110-cell stage embryo, electroporated with a lacZ transgene containing the -205bp of the 5' flanking Ci-ZicLB promoter sequence. The expression is detected in all the daughter cells of A6.2, A6.4, B6.2 and B6.4 (control injected with -658Z construct).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B7.7 cell pair - B8.15 cell pair - B8.16 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 11 (early gastrula)

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Dorso-animal view of a Ciona robusta early gastrula embryo probed for Zic-r.b expression and injected into the pair of anterior animal cells of 8-cell embryos with a control MO.
Zic-r.b expression is observed in neural plate precursors (of rows I to IV) and in tail muscles.
Cyan arrowheads indicate expression in a-line cells. n, number of embryos examined. % : Percentages of embryos with loss of Zic-r.b expression in the a-line cells are shown.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.15 cell pair - A8.16 cell pair - a8.17 cell pair - a8.19 cell pair - a8.25 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B8.15 cell pair - B8.16 cell pair - b8.17 cell pair - B9.13 cell pair - B9.14 cell pair - B9.15 cell pair - B9.16 cell pair -

C. robusta formely Ciona int. type A, Stage 11 (early gastrula)

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Dorso-animal view of a Ciona robusta early gastrula embryo probed for Zic-r.b expression and injected into the pair of anterior animal cells of 8-cell embryos with a morpholino against Foxa.a..
Zic-r.b expression is observed in neural plate precursors (of rows I to IV) and in tail muscles.
Original annotation: When we injected Foxa.a MO into the pair of anterior animal cells of 8-cell embryos, Zic-r.b expression was not lost.
Cyan arrowheads indicate expression in a-line cells. n, number of embryos examined. % : Percentages of embryos with loss of Zic-r.b expression in the a-line cells are shown (no embryos lost Zic-r.b expression)

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.15 cell pair - A8.16 cell pair - a8.17 cell pair - a8.19 cell pair - a8.25 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B8.15 cell pair - B8.16 cell pair - b8.17 cell pair - B9.13 cell pair - B9.14 cell pair - B9.15 cell pair - B9.16 cell pair -

C. robusta formely Ciona int. type A, Stage 11 (early gastrula)

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At the early gastrula stage, ZicL is expressed in the precursors of rows III and IV of the a-neural plate, in the muscles and in the A-neural plate precursors (rows I and II).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - a8.17 cell pair - a8.19 cell pair - a8.25 cell pair - A8.7 cell pair - A8.8 cell pair - B7.5 cell pair - B8.15 cell pair - B8.16 cell pair - B9.13 cell pair - B9.14 cell pair - B9.15 cell pair - B9.16 cell pair -

C. robusta formely Ciona int. type A, Stage 11 (early gastrula)

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Original annotation : ZicL expression at the early gastrula stage in embryos expressing BZ1 under the DMRT1 upstream sequence (shown in anterior views; animal pole up). The overexpression constructs were injected into one anterior animal cell of eight-cell embryos. Descendants of the blastomere injected with the constructs are encircled by pink dashed lines. The expression is illustrated schematically at the bottom right in blue (brain). Following injection of these constructs into an anterior animal cell at the eight-cell stage, ZicL expression is partially lost in the injected octant.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.7 cell pair - A8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 11 (early gastrula)

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Original annotation : ZicL expression at the early gastrula stage in embryos expressing BZ2 under the DMRT1 upstream sequence (shown in anterior views; animal pole up). The overexpression constructs were injected into one anterior animal cell of eight-cell embryos. Descendants of the blastomere injected with the constructs are encircled by pink dashed lines. The expression is illustrated schematically at the bottom right in blue (brain). Following injection of this construct into an anterior animal cell at the eight-cell stage, ZicL expression is completely lost in the injected octant.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.7 cell pair - A8.8 cell pair -

C. robusta formely Ciona int. type A, Stage 11 (early gastrula)

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At the early gastrula stage, ZicL is expressed in the precursors of rows III and IV of the neural plate, and in the muscles.
Original annotation : The expression of ZicL in control embryos at the early gastrula stage (shown in animal view). The expression is illustrated schematically in the lower right by red (palps) and blue (brain).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - a8.17 cell pair - a8.19 cell pair - a8.25 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B8.15 cell pair - B8.16 cell pair - B8.6 cell pair - B9.10 cell pair - B9.13 cell pair - B9.14 cell pair - B9.15 cell pair - B9.9 cell pair -

C. robusta formely Ciona int. type A, Stage 11 (early gastrula)

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Original annotation : The expression of ZicL in morphant embryos at the early gastrula stage (shown in animal view). The expression is illustrated schematically in the lower right by red (palps) and blue (brain).
ZicL, which is normally expressed in the brain lineage at the early gastrula stage, is ectopically expressed in the palp lineage in BZ1/2 morphants.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - a8.17 cell pair - a8.18 cell pair - a8.19 cell pair - a8.20 cell pair - a8.25 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B8.15 cell pair - B8.16 cell pair - B8.6 cell pair - B9.10 cell pair - B9.13 cell pair - B9.14 cell pair - B9.15 cell pair - B9.9 cell pair -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Batch of WT Ciona robusta mid gastrula stage embryos probed for Zic-r.b expression.
Zic-r.b is expressed in the ectoderm (neural plate rows I, III IV and b- neural plate).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) b line neural plate - row III neural plate - row I neural plate - row IV neural plate -

Batch of control Ciona robusta mid gastrula stage embryos probed for Zic-r.b expression and electroporated with pFT>Tomato reporter construct.
Zic-r.b is expressed in the ectoderm (neural plate rows I, III IV and b- neural plate).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) b line neural plate - row III neural plate - row I neural plate - row IV neural plate -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Batch of WT Ciona robusta mid gastrula stage embryos probed for Zic-r.b expression.
Zic-r.b is expressed in the ectoderm (neural plate rows I, III IV and b- neural plate).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) b line neural plate - row III neural plate - row I neural plate - row IV neural plate -

Batch of control Ciona robusta mid gastrula stage embryos probed for Zic-r.b expression and electroporated with pFT>Tomato reporter construct.
Zic-r.b is expressed in the ectoderm (neural plate rows I, III IV and b- neural plate).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) b line neural plate - row III neural plate - row I neural plate - row IV neural plate -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Batch of Ciona robusta neurula stage embryos probed for Zic-r.b expression and co-electroporated with pFT>Foxa.a, pFT>Foxd and pFT>Fgf9/16/20 overexpression constructs. The upstream regulatory sequences of the Fucosyltransferase-like (FT) is active in ectoderm cells from the 64-cell stage.
A lot of ectopic ectodermic staining is observed.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) ectoderm primordia -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Late gastrula stage wild type embryo probed for ZicL expression. No picture available in the article.

Original Annotation :
Ci-ets/pointed2 was expressed in A9.15, A9.16, A9.29, b9.37 and b9.38 cell pairs.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A9.15 cell pair - A9.16 cell pair - A9.29 cell pair - b9.37 cell pair - b9.38 cell pair -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Vegetal view of a mid gastrula stage embryo showing Ci-ZicL expression. Embryos were treated with DMSO from the 16-cell stage.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A9.13 cell pair - A9.15 cell pair - A9.29 cell pair - a9.33 cell pair - a9.34 cell pair - a9.37 cell pair - a9.38 cell pair - a9.49 cell pair - a9.50 cell pair - b line neural plate - posterior secondary muscle lineage (A9.31 line) -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Vegetal view of a mid gastrula stage embryo showing Ci-ZicL expression. Embryos were treated with SB431542 from the 16-cell stage.

Original annotation:
Expression of ci-ZicL diminished in the A-line nerve cord lineage-cells.
Blue arrowhead indicates blastomeres in which the expression was diminished.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) a9.33 cell pair - a9.34 cell pair - a9.37 cell pair - a9.38 cell pair - a9.49 cell pair - a9.50 cell pair - b line neural plate - posterior secondary muscle lineage (A9.31 line) -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Vegetal view of a mid gastrula stage embryo showing Ci-ZicL expression. Embryos were treated with SB431542 from the 64-cell stage.

Original annotation:
SB431542 treatment from the 64-cell stage did not affect the expression pattern of Ci-ZicL.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A9.13 cell pair - A9.15 cell pair - A9.29 cell pair - a9.33 cell pair - a9.34 cell pair - a9.37 cell pair - a9.38 cell pair - a9.49 cell pair - a9.50 cell pair - b line neural plate - posterior secondary muscle lineage (A9.31 line) -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Vegetal view (anterior is up) of a mid-gastrula embryo stained for Ci-ZicL-B mRNA by in situ hybridization.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A line neural plate - b line neural plate - row III neural plate - row IV neural plate - tail muscles -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Vegetal view of a mid gastrula WT embryo co-electroporated with Dmrt>H2B:CFP (blue, nuclei) and ZicL>mCherry:caax (magenta, plasma membrane).
Original annotation : Rows V and VI express Dmrt exclusively and contribute to the palps, OSP, and peripheral nervous system. ZicL and Dmrt reporters co-localize in rows III and IV, which give rise to the anterior sensory vesicle. Rows I and II express ZicL exclusively and contribute to posterior brain, motor ganglion, and tail nerve cord. Scale bars in (C, D)1⁄450 μm.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) posterior secondary muscle lineage (A9.31 line) - primary muscle lineage - row III neural plate - row II neural plate - row I neural plate - row IV neural plate -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Vegetal view of a mid gastrula WT embryo probed for six3/6 expression (red) and electroporated with ZicL>YFP-caax (white, plasma membrane-localized). Signal is detected in neural plate rows I, II, III and IV.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) posterior secondary muscle lineage (A9.31 line) - row III neural plate - row II neural plate - row I neural plate - row IV neural plate -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Vegetal view of a mid gastrula WT embryo probed for Myt1L (red) and Tyrp1A (green) expression and electroporated with ZicL>YFP-caax (white, plasma membrane-localized). Signal is detected in neural plate rows I, II, III and IV.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) notochord - row III neural plate - row II neural plate - row I neural plate - row IV neural plate - tail muscles -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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ZicL>YFP:caax is active in neural plate rows I, II, III and IV at the mid gastrula stage.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) notochord - row III neural plate - row II neural plate - row I neural plate - row IV neural plate - tail muscles -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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ZicL>YFP:caax is active in neural plate rows I, II, III and IV at the mid gastrula stage.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) row III neural plate - row II neural plate - row I neural plate - row IV neural plate -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Vegetal view of a mid gastrula embryo probed for Six3/6 expression (red) and co-electroporated with Dmrt>H2B:YFP (green) and ZicL>LacZ (white). LacZ signal is detected in neural plate rows I, II, III and IV, and in the primary muscle lineage.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) posterior secondary muscle lineage (A9.31 line) - primary muscle lineage - row III neural plate - row II neural plate - row I neural plate - row IV neural plate -

C. robusta formely Ciona int. type A, Stage 12 (mid gastrula)

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Vegetal view of a late gastrula embryo probed for Elk1/3/4 expression (red), co-electroporated with Dmrt>YFP:caax (green) and ZicL>LacZ (white).
LacZ signal is detected in neural plate rows I, II, III and IV, and in the primary muscle lineage.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) posterior secondary muscle lineage (A9.31 line) - primary muscle lineage - row III neural plate - row II neural plate - row I neural plate - row IV neural plate -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Aniseed Comment : update of annotation of (Imai et al.,2004), based on (Imai et al.,2005).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A10.31 cell pair - A10.32 cell pair - A9.15 cell pair - A9.29 cell pair - a9.33 cell pair - a9.34 cell pair - a9.37 cell pair - a9.38 cell pair - a9.49 cell pair - a9.50 cell pair - b9.33 cell pair - b9.37 cell pair - b9.38 cell pair -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Conversion to Aniseed format of data from Yutaka Satous gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :ZicL.
Expression pattern : nervous system.
Comment : A9.13, A9.14, A9.15, A9.16, A9.29, A9.30, A9.32, a9.33, a9.34, a9.37, a9.38, a9.49, a9.50, b9.34, b9.37, b9.38.

Aniseed annotation : a staining has also been detected in the neural plate.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A9.13 cell pair - A9.15 cell pair - A9.29 cell pair - A9.30 cell pair - A9.32 cell pair - a9.33 cell pair - a9.34 cell pair - a9.37 cell pair - a9.38 cell pair - a9.49 cell pair - a9.50 cell pair - b9.33 cell pair - b9.37 cell pair - b9.38 cell pair -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Vegetal view of a late gastrula stage embryo showing Ci-ZicL expression.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A9.15 cell pair - A9.29 cell pair - a9.33 cell pair - a9.34 cell pair - a9.37 cell pair - a9.38 cell pair - a9.49 cell pair - a9.50 cell pair - b line neural plate - posterior secondary muscle lineage (A9.31 line) -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Vegetal view of a late gastrula stage embryo. Ci-ZicL expression was examined in embryos that expressed Ci-FoxD/Ci-nodal transgene.

Original annotation:
Ci-FoxD/Ci-nodal transgene mediated ectopic activation of Ci-ZicL expression in all A-line nerve cord-lineage cells.
Red arrowheads indicates ectopic expression.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) a9.33 cell pair - a9.34 cell pair - a9.37 cell pair - a9.38 cell pair - a9.49 cell pair - a9.50 cell pair - A line neural plate - b line neural plate - posterior secondary muscle lineage (A9.31 line) -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Vegetal view of a late gastrula stage embryo. Ci-ZicL expression was examined in embryos that expressed Ci-FoxD/Ci-lefty transgene.

Original annotation:
The Ci-FoxD/Ci-lefty transgene diminished the Ci-ZicL expression in A-line cells. Expression in a-line and b-line cells were not affected.
Blue arrowhead indicates blastomeres in which the expression was diminished.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) a9.33 cell pair - a9.34 cell pair - a9.37 cell pair - a9.38 cell pair - a9.49 cell pair - a9.50 cell pair - b line neural plate -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Vegetal view of a late gastrula stage embryo. Ci-ZicL expression was examined in SB431542-treated embryos.

Original annotation:
The SB431542 treatment diminished the Ci-ZicL expression in A-line cells. Expression in a-line and b-line cells were not affected.
Blue arrowhead indicates blastomeres in which the expression was diminished.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) a9.33 cell pair - a9.34 cell pair - a9.37 cell pair - a9.38 cell pair - a9.49 cell pair - a9.50 cell pair - b line neural plate - posterior secondary muscle lineage (A9.31 line) -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Vegetal view of a late gastrula stage wild type embryo probed for ZicL expression. The expression of Ci-ZicL was detected is b9.33, b9.37, b9.38, A9.29, A9.15, a9.49, a9.33, a9.37, a9.50, a9.4, a9.38 cells.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A9.15 cell pair - A9.29 cell pair - a9.33 cell pair - a9.34 cell pair - a9.37 cell pair - a9.38 cell pair - a9.49 cell pair - a9.50 cell pair - b9.33 cell pair - b9.37 cell pair - b9.38 cell pair -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Vegetal view of a late gastrula stage embryo probed for ZicL expression following egg micro-injection of a FoxD-a/b MO. ZicL is down-regulated in a-line neural cells and A-line nerve cord cells.

Aniseed annotation : Weak staining is detected in B-line cells in this picture. b-line cells are not observed in the picture.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) b9.33 cell pair - b9.37 cell pair - b9.38 cell pair - primary muscle lineage -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Vegetal view of a late gastrula stage embryo probed for ZicL expression following egg micro-injection of a FGF9/16/20-MO.
Origina Annotation : ZicL is down-regulated in a-line neural cells and b-line neural cells.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A9.15 cell pair - A9.29 cell pair -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Aniseed Comment : update of annotation of (Imai et al.,2004), based on (Imai et al.,2006).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A10.31 cell pair - A10.32 cell pair - A9.15 cell pair - A9.29 cell pair - a9.33 cell pair - a9.34 cell pair - a9.37 cell pair - a9.38 cell pair - a9.49 cell pair - a9.50 cell pair - b9.33 cell pair - b9.37 cell pair - b9.38 cell pair -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Aniseed Comment : update of annotation of (Imai et al.,2004), based on (Imai et al.,2006).

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) A10.31 cell pair - A10.32 cell pair - A9.15 cell pair - A9.29 cell pair - a9.33 cell pair - a9.34 cell pair - a9.37 cell pair - a9.38 cell pair - a9.49 cell pair - a9.50 cell pair - b9.33 cell pair - b9.37 cell pair - b9.38 cell pair -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Conversion to Aniseed format of Ghost database entry from Fujiwara S et al., Mech Dev. 2002; 112Gene name: 115-127. Original annotation: . Expression pattern: Nervous system Notochord

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) neural plate - notochord -

C. robusta formely Ciona int. type A, Stage 13 (late gastrula)

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Vegetal view of a late gastrula embryo probed for Ets1/2 expression (red), co-electroporated with Dmrt>YFP:caax (green) and ZicL>LacZ (white).
LacZ signal is detected in neural plate rows I, II, III and IV, and in the primary muscle lineage.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) posterior secondary muscle lineage (A9.31 line) - primary muscle lineage - row III neural plate - row II neural plate - row I neural plate - row IV neural plate -

C. robusta formely Ciona int. type A, Stage 14 (early neurula)

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Early neurula electroporated with ZicL>GFP (yellow) and probed for Six1/2 (pink) and Eya (blue) expression.
Original annotation : Dorsal view of an embryo at early neurula stage electroporated with ZicL>GFP and hybridized with Six1/2 and Eya mRNA probes. The neural plate is marked by ZicL.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) neural plate -

C. robusta formely Ciona int. type A, Stage 15 (mid neurula)

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Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :ZicL.
Expression pattern : nervous system

Aniseed annotation :
It seems that expression is localized in a-line neural plate.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) a line neural plate -

C. robusta formely Ciona int. type A, Stage 17 (initial tailbud I)

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Original annotation : Dorsal view of an initial tailbud embryo co-electroporated with Six1/2GFP (green) and ZicL>CFP (yellow). Brackets indicate the derivatives of the annotated lineages. Anterior is to the left.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) anterior sensory vesicle - notochord - tail muscles -

C. robusta formely Ciona int. type A, Stage 19 (early tailbud I)

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Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :ZicL.
Expression pattern : No distinct zygotic signal was detected

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) No expression -

C. robusta formely Ciona int. type A, Stage 21 (mid tailbud I)

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Views of mid tailbud stage embryos showing reporter expression of the region upstream of PTFb, drived by the fog promoter in mesenchyme.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s)

C. robusta formely Ciona int. type A, Stage 21 (mid tailbud I)

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Views of mid tailbud stage embryos showing reporter expression of the region upstream of PTFb in notochord.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) notochord -

C. robusta formely Ciona int. type A, Stage 23 (late tailbud I)

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Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).

Original annotation :
Gene name :ZicL.
Expression pattern : No distinct zygotic signal was detected

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) whole embryo -

C. robusta formely Ciona int. type A, Stage 23 (late tailbud I)

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Lateral view of a late tailbud embryo co-electroporated with Dmrt>H2B:CFP (blue, nuclei) and ZicL>mCherry:caax (magenta, plasma membrane).
Original annotation : Colored linesindicate territories derived from neural plate rows. Rows V and VI express Dmrt exclusively and contribute to the palps, OSP, and peripheral nervous system. ZicL and Dmrt reporters co-localize in rows III and IV, which give rise to the anterior sensory vesicle. Rows I and II express ZicL exclusively and contribute to posterior brain, motor ganglion, and tail nerve cord. Scale bar 1⁄450 μm.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) anterior sensory vesicle - neck - posterior sensory vesicle - tail nerve cord - visceral ganglion -

C. robusta formely Ciona int. type A, Stage 26 (hatching larva)

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Views of larvae showing reporter expression of the region upstream of PTFb drived by the fog promoter in mesenchyme, muscle and endoderm.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) head endoderm - tail muscles -

C. robusta formely Ciona int. type A, Stage 26 (hatching larva)

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Views of larvae showing reporter expression of the region upstream of PTFb in notochord.

Stained molecule KH2012:KH.S816.1 (ZIC2; ZIC3; ZIC4)
Stained region(s) notochord -