Aniseed - Gene Card

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Nori Satoh unpublished cDNA library Nori Satoh unpublished cDNA library		0 clone(s) / 5,577
Nori Satoh unpublished cDNA library, young adult Nori Satoh unpublished cDNA library, young adult		2 clone(s) / 31,366
Nori Satoh unpublished cDNA library, cleavage stage embryo Nori Satoh unpublished cDNA library, cleavage stage embryo		0 clone(s) / 15,579
Nori Satoh unpublished cDNA library, egg Nori Satoh unpublished cDNA library, egg		0 clone(s) / 31,100
Nori Satoh unpublished cDNA library, larva Nori Satoh unpublished cDNA library, larva		0 clone(s) / 26,704
Nori Satoh unpublished cDNA library, tailbud embryo Nori Satoh unpublished cDNA library, tailbud embryo		1 clone(s) / 26,680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K. Inaba unpublished cDNA library, testis K. Inaba unpublished cDNA library, testis		0 clone(s) / 5,468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Nori Satoh unpublished cDNA library, blood cells Nori Satoh unpublished cDNA library, blood cells		1 clone(s) / 29,579
Nori Satoh unpublished cDNA library, endostyle Nori Satoh unpublished cDNA library, endostyle		0 clone(s) / 2,556
Nori Satoh unpublished cDNA library, cleaving embryo Nori Satoh unpublished cDNA library, cleaving embryo		0 clone(s) / 16,939
Nori Satoh unpublished cDNA library, gastrula and neurula Nori Satoh unpublished cDNA library, gastrula and neurula		0 clone(s) / 25,258
Nori Satoh unpublished cDNA library, gonad Nori Satoh unpublished cDNA library, gonad		0 clone(s) / 16,936
Nori Satoh unpublished cDNA library, neural complex Nori Satoh unpublished cDNA library, neural complex		0 clone(s) / 10,463
Nori Satoh unpublished cDNA library, heart Nori Satoh unpublished cDNA library, heart		0 clone(s) / 13,243
Yutaka Satou unpublished cDNA library, adult digestive gland Yutaka Satou unpublished cDNA library, adult digestive gland		0 clone(s) / 17,765
Yutaka Satou unpublished cDNA library, embryo whole animal Yutaka Satou unpublished cDNA library, embryo whole animal		0 clone(s) / 17,872
Yutaka Satou unpublished cDNA library, mature adult whole animal Yutaka Satou unpublished cDNA library, mature adult whole animal		0 clone(s) / 107,314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		3 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		1 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)		0 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 2^RLE does not permit you to compare a gene across different experiments.

Download RLE Relative Log Expression data

RNA-Seq Experiment n°34135

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

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

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

45 results

Click here to visualize with MorphoNet

Experiment data ( results)

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

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 :Pax258-A.
Expression pattern : No signal was detected

Aniseed annotation :
Weak signal is detected through the embryo (maternal signal?).

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	whole embryo -

C. robusta formely Ciona int. type A, Stage 4 (8-cell)

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 :Pax258-A.
Expression pattern : No distinct zygotic signal was detected

Aniseed annotation :
Weak signal is detected through the embryo (maternal signal?).

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	whole embryo -

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

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 :Pax258-A.
Expression pattern : No distinct zygotic signal was detected

Aniseed annotation :
Weak signal is detected through the embryo (maternal signal?).

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	whole embryo -

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

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 :Pax258-A.
Expression pattern : No distinct zygotic signal was detected

Aniseed annotation :
No picture available at this stage.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	whole embryo -

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

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 :Pax258-A.
Expression pattern : No distinct zygotic signal was detected

Aniseed annotation :
Weak signal is detected through the embryo.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	whole embryo -

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

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 :Pax258-A.
Expression pattern : No distinct zygotic signal was detected

Aniseed annotation :
Weak signal is detected through the embryo.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	whole embryo -

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

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 :Pax258-A.
Expression pattern : No distinct zygotic signal was detected

Aniseed annotation :
Weak signal is detected through the embryo.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	whole embryo -

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

Vegetal view of a late gastrula stage embryo treated with U0126 from the 44-cell stage, and probed for Ci-Pax2/5/8-A expression.
Numbers indicate the total number of embryos analyzed.

Original Annotation :
There is no expression at this stage.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	No expression -

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

Expression of CiPax2/5/8 at early neurula stage.

Original annotation: in early neurulae, CiPax2/5/8 was expressed in a bilateral pair of cells in the anrerior neural plate.

Aniseed annotation: according to the pictures, cells in which CiPax2/5/8 was expressed may be the precursors of the visceral ganglion cells.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	A10.32 cell pair -

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

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 :Pax258-A.
Expression pattern : nervous system.
Comment : ganglion

Aniseed annotation :
Cells that give ganglion at mid neurula stage are A10.28 cell pair, A10.30 cell pair, A10.31 cell pair, A10.32 cell pair, A10.58 cell pair, A10.59 cell pair, A10. 60, b9.38. It seems that there is no staining in A10.28 cell pair.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	A10.30 cell pair - A10.31 cell pair - A10.32 cell pair - A10.58 cell pair - A10.59 cell pair - A10.60 cell pair - b9.38 cell pair -

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

Dorsal view of an initial tailbud stage embryo treated with U0126 from the early gastrula stage, and probed for Ci-Pax2/5/8-A expression.
Numbers indicate the total number of embryos analyzed.

Original Annotation :
Embryos treated with U0126 from the gastrula stage when FGF8/17/18 expression in A7.6 begins do not express Pax2/5/8-A.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	No expression -

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

Dorsal view of an initial tailbud stage embryo treated with U0126 from the late gastrula stage, and probed for Ci-Pax2/5/8-A expression.
Numbers indicate the total number of embryos analyzed.

Original Annotation :
Embryos treated with U0126 from the late gastrula stage when FGF8/17/18 expression in A9.30 begins do not express Pax2/5/8-A.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	No expression -

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

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 :Pax258-A.
Expression pattern : nervous system.
Comment : ganglion

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - visceral ganglion -

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

Lateral view of an early tailbud stage embryo probed for CiPax2/5/8 expression

Aniseed annotation: According to the pictures, cells in which CiPax2/5/8 was expressed may be the precursors of the visceral ganglion cells.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	visceral ganglion -

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

Lateral view of an early tailbud wild type embryo probed for Pax2/5/8 expression.
Red and yellow arrowheads indicate boundaries between the neck and the visceral ganglion, and between the visceral ganglion and the caudal nerve cord, respectively.

Original Annotation :
Pax2/5/8 was expressed in A11.61 and A11.62 cell pairs (neck).

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck -

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

Dorsal view of an early tailbud stage embryo probed for Pax2/5/8 expression, following the injection of FGF8/17/18 MO (FGF8/17/18-MO (Imai 2009)). Note that two FGF8/17/18 MOs were used in this article (in Aniseed FGF8/17/18-MO (Imai 2009) and FGF8/17/18-MO 2nd (Imai 2009)).
Red and yellow arrowheads indicate boundaries between the neck and the visceral ganglion, and between the visceral ganglion and the caudal nerve cord, respectively.

Original Annotation :
Expression in the neck was lost (white arrow).

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	No expression -

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

Dorsal view of an early tailbud stage embryo probed for Pax2/5/8 expression, following the injection of the second FGF8/17/18 MO (FGF8/17/18- 2nd MO (Imai 2009)). Note that two FGF8/17/18 MOs were used in this article (in Aniseed FGF8/17/18-MO (Imai 2009) and FGF8/17/18-2nd MO (Imai 2009)).
Red and yellow arrowheads indicate boundaries between the neck and the visceral ganglion, and between the visceral ganglion and the caudal nerve cord, respectively.

Original Annotation :
Expression in the neck was lost (white arrow).

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	No expression -

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

Dorsal view of an early tailbud stage wild type embryo probed for Ci-Pax2/5/8-A expression. The insert shows in red cells from the posterior sensory vesicle (PSV) and light-blue cells from the middle part of the visceral ganglion (VG). Broken white lines indicate the boundaries of the PSV/neck and the neck/VG.

Original Annotation :
Ci-Pax2/5/8-A expression was detected in A11.62 and A11.61 cell pairs (neck).

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck -

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

Dorsal view of an early tailbud stage embryo probed for Ci-Pax2/5/8-A expression, following the injection of FGF8/17/18 MO. The insert shows in red cells from the posterior sensory vesicle (PSV) and light-blue cells from the middle part of the visceral ganglion (VG). Broken white lines indicate the boundaries of the PSV/neck and the neck/VG.

Original Annotation :
Ci-Pax2/5/8-A expression was lost following the disruption of FGF8/17/18.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	No expression -

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

Dorsal view of an early tailbud stage embryo treated with U0126 from the neurula stage, and probed for Ci-Pax2/5/8-A expression.
Numbers indicate the total number of embryos analyzed.

Original Annotation :
Embryos treated with U0126 from the neurula stage express Ci-Pax2/5/8-A.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck -

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

Dorsal views of early tailbud stage embryo expressing Pax2/5/8a. The upper panel shows WISH signals, the middle DAPI signals and the lower the merged images.
Arrowheads indicate nuclei of the cells that express Pax2/5/8a. Open arrows indicate the constrictions in the row of nuclei of the lateral cells. Red dots indicate nuclei of the landmark cells.

Original annotation:
Ci-Pax2/5/8a is expressed in two cells on each side in the constricted part (visceral ganglion).
NB: All genes described in figure 4 are expressed exclusively in the lateral cell rows.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	lateral VG ependymal precursors -

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

Two-color fluorescence WISH was performed at the early tailbud stage. Pax2/5/8a expression is shown in green, Otx in red.

Original annotation: Ci-Pax2/5/8a is expressed in visceral ganglion. Ci-Pax2/5/8a is expressed just posterior to the Ci-Otx expression domain.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - visceral ganglion -

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

Two-color fluorescence WISH was performed at the early tailbud stage. Pax2/5/8a expression is shown in red, Hox1 in green.

Original annotation:Ci-Pax2/5/8a is expressed in visceral ganglion. The anterior boundaries of the Ci-Pax2/5/8a domain and the first Ci-Hox1 domain coincide, with the former being included by the latter.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - visceral ganglion -

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

Two-color fluorescence WISH was performed at the early tailbud stage. Pax2/5/8a expression is shown in red, En in green.

Original annotation:
Ci-Pax2/5/8 is expressed in visceral ganglion. Ci-Pax2/5/8 is expressed between the two Ci-En expression domains.

Aniseed annotation:
It seems that there is expression in the tip of the tail.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	dorsal midline posterior tail epidermis - neck - visceral ganglion -

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

Lateral view of an early tailbud stage embryo probed for Fgf9/16/20 and Pax2/5/8 expression.

Original annotation :
Ci-Fgf9/16/20 is expressed anterior to Ci-Fgf8/17/18, spanning the domain marked by Ci-Pax2/5/8 and the first Ci-En stripe.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - visceral ganglion -

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

Lateral view of an early tailbud stage embryo probed for En and Pax/2/5/8 expression.

Original annotation:
The posterior expression domain is just behind the neck region marked by Ci-Pax2/5/8.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - visceral ganglion -

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

Double in situ with CiPax3/7 in red and CiPax2/5/8 in blue. Red arrows indicate the positions of three patches of CiPax3/7 expression, note the overlap of the posterior patches of CiPax3/7 with Cipax2/5/8.

Original annotation: CiPax 2/5/8 is coexpressed with the third band of Cipax3/7.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	anterior sensory vesicle - posterior sensory vesicle - visceral ganglion -

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

Expression of CiPax2/5/8 at mild tailbud stage.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	visceral ganglion -

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

Expressions of Ci-Dmbx (blue stain, arrow) and Ci-Pax2/5/8-A (red stain, black triangle) at mid tail-bud stage. Ci-Dmbx is expressed in cells immediately posterior to cells expressing Ci-Pax2/5/8-A, with no gap and no overlap. Ci-Pax2/5/8-A is expressed in the 'neck' region of the neural tube.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - visceral ganglion -

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

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 :Pax258-A.
Expression pattern : nervous system.
Comment : ganglion

Aniseed annotation :
It seems that there is expression in the tip of the tail and in the palps.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	dorsal midline posterior tail epidermis - neck - visceral ganglion -

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

Dorsal views of mid tailbud stage embryo expressing Pax2/5/8a. The upper panel shows WISH signals, the middle DAPI signals and the lower the merged images.
Arrowheads indicate nuclei of the cells that express Pax2/5/8a. Open arrows indicate the constrictions in the row of nuclei of the lateral cells. Red dots indicate nuclei of the landmark cells.

Original annotation:
Ci-Pax2/5/8a is expressed in five cells on each side and the posterior two cells are at the first constriction (visceral ganglion).
NB: All genes described in figure 4 are expressed exclusively in the lateral cell rows.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	lateral VG ependymal precursors - neck -

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

Two-color-fluorescence WISH was performed at the mid tailbud stage. Pax2/5/8a expression is shown in green, Otx in red.

Original annotation:
Ci-Pax2/5/8a is expressed in visceral ganglion. The expression domain of Ci-Pax2/5/8a is still adjoining the Ci-Otx domain.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - visceral ganglion -

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

Two-color-fluorescence WISH was performed at the mid tailbud stage. Pax2/5/8a expression is shown in red, Hox1 in green.

Original annotation:
Ci-Pax2/5/8a is expressed in visceral ganglion and part of tail nerve cord. The anterior part of the first domain of Ci-Hox1 overlaps with the posterior part of the Ci-Pax2/5/8a domain.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - visceral ganglion -

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

Two-color-fluorescence WISH was performed at the mid tailbud stage. Pax2/5/8a expression is shown in red, En in green.

Original annotation:
Ci-Pax2/5/8a is expressed in visceral ganglion and in the neck. The expression pattern of Ci-En has dramatically altered by this stage. Ci-En is expressed in three domains aligned along A-P axis. The first and second domains of Ci-En correspond to the anterior and posterior parts of the Ci-Pax2/5/8a domain.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - visceral ganglion -

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

Lateral view of a late tailbud embryo probed for Ci-Pax2/5/8 and Ci-Six1/2 expression.

Original Annotation : Double in situs with Ci-Six1/2 (red) and Ci-Pax2/5/8 (blue). The picture shows that the lateral ectoderm domain expressing Ci-Six1/2 to be adjacent to the region of the brain that expressed Ci-Pax2/5/8.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - posterior sensory vesicle - visceral ganglion -

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

Late tailbud embryo probed for Ci-vAChTP expression (in blue), Ci-Pax2/5/8 expression (in green) and Ci-En expression (in red).

Original annotation:
According to the gene expression map (Ikuta and Saiga, 2007), expression of Pax2/5/8 was observed in A13.241, A13.242, A13.243, A13.244 and A13.245 cell pairs.

Aniseed annotation:
These cells have several fate corresponding to lateral visceral ganglion, neck and ventral posterior sensory vesicle.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	lateral VG ependymal cells - neck -

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

Late tailbud embryo probed for Ci-vAChTP expression (in blue), Ci-Pax2/5/8 expression (in green) and Ci-En expression (in red) following the injection of Ci-Hox1-MO.

Original annotation:
Expression of the genes that share the expression domain with the Hox genes at tailbud or larval stage was unaffected in the tailbud embryos or larvae injected with MOs against Ci-Hox1, 2, 3, 4 and 5.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	lateral VG ependymal cells - neck -

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

Dorsal views of late tailbud stage embryo expressing Pax2/5/8a. The upper panel shows WISH signals, the middle DAPI signals and the lower the merged images.
Arrowheads indicate nuclei of the cells that express Pax2/5/8a. Open arrows indicate the constrictions in the row of nuclei of the lateral cells. Red dots indicate nuclei of the landmark cells.

Original annotation:
The expression domain of Ci-Pax2/5/8a is just anterior to the L1 cell, including six cells on each side.
NB: All genes described in figure 4 are expressed exclusively in the lateral cell rows.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	lateral VG ependymal cells - neck -

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

Two-color-fluorescence WISH was performed at the late tailbud stage. Pax2/5/8a expression is shown in green, Otx in red.

Original annotation:
Ci-Pax2/5/8a is expressed in the visceral ganglion and neck. Ci-Pax 2/5/8a domain anteriorly abuts the Ci-Otx domain.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - visceral ganglion -

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

Two-color-fluorescence WISH was performed at the late tailbud stage. Pax2/5/8a expression is shown in red, Hox1 in green.

Original annotation:
Ci-Pax2/5/8a is expressed in the visceral ganglion and in the neck. Ci-Pax2/5/8a domain posteriorly overlaps with the anterior part of the first domain of Ci-Hox1.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - visceral ganglion -

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

Two-color fluorescence WISH was performed at the late tailbud stage. Pax 2/5/8a expression is shown in red, En in green.
Ci-Pax 2/5/8a is expressed in visceral ganglion and neck.

Original annotation:
Expression of Ci-En was detected in three domains. The first and second domains overlap with the anterior and posterior part of the Ci-Pax2/5/8a expression domain.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	neck - visceral ganglion -

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

Expression of CiPax2/5/8 at larvae stage.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)	siphon primordia -

C. robusta formely Ciona int. type A, Stage 48 (young adult)

Conversion to Aniseed format of Ghost database entry from Ogasawara et al., Dev Genes Evol. 2002; 212:173-185. Original annotation: . Expression pattern: Endostyle Pharyngeal gill Neural gland Stomach

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)

C. robusta formely Ciona int. type A, Stage 48 (young adult)

Lateral view of a ciona juvenile probed for Pax2/5/8-a expression.

Original annotation :
Ci2/5/8-a was detected in zones 3 and 5 of the differentiated endostyle (en).

Aniseed annotation :
According to the picture, part of epidermis seems to be stained.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)

C. robusta formely Ciona int. type A, Stage 49 (mature adult)

Transverse section of an adult probed for Pax2/5/8-a expression.

Original annotation:
Ci-Pax2/5/8-a was detected in zones 5 and 7 of the endostyle.

Stained molecule	KH2012:KH.S1363.2 (KH.S1363.2)
Stained region(s)