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| Nori Satoh unpublished cDNA library Nori Satoh unpublished cDNA library |
|
2 clone(s) / 5,577 |
| Nori Satoh unpublished cDNA library, young adult Nori Satoh unpublished cDNA library, young adult |
|
1 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| Nori Satoh unpublished cDNA library, cleavage stage embryo Nori Satoh unpublished cDNA library, cleavage stage embryo |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| Nori Satoh unpublished cDNA library, egg Nori Satoh unpublished cDNA library, egg |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| Nori Satoh unpublished cDNA library, larva Nori Satoh unpublished cDNA library, larva |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| Nori Satoh unpublished cDNA library, tailbud embryo Nori Satoh unpublished cDNA library, tailbud embryo |
|
3 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| K. Inaba unpublished cDNA library, testis K. Inaba unpublished cDNA library, testis |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| Nori Satoh unpublished cDNA library, blood cells Nori Satoh unpublished cDNA library, blood cells |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| Nori Satoh unpublished cDNA library, endostyle Nori Satoh unpublished cDNA library, endostyle |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| Nori Satoh unpublished cDNA library, cleaving embryo Nori Satoh unpublished cDNA library, cleaving embryo |
|
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| Nori Satoh unpublished cDNA library, gastrula and neurula Nori Satoh unpublished cDNA library, gastrula and neurula |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| Nori Satoh unpublished cDNA library, gonad Nori Satoh unpublished cDNA library, gonad |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| Nori Satoh unpublished cDNA library, neural complex Nori Satoh unpublished cDNA library, neural complex |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| Nori Satoh unpublished cDNA library, heart Nori Satoh unpublished cDNA library, heart |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| Yutaka Satou unpublished cDNA library, adult digestive gland Yutaka Satou unpublished cDNA library, adult digestive gland |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| Yutaka Satou unpublished cDNA library, embryo whole animal Yutaka Satou unpublished cDNA library, embryo whole animal |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 |
|
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) |
|
0 clone(s) / 188,431 |
2 results
OVERVIEW
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.
OVERVIEW
Be careful, RLE and 2RLE does not permit you to compare a gene across different experiments.
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 |
|
|
| 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) | ||
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 |
|
|
| 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) | |
18 results
Lateral view of an early tailbud embryo showing expression of Citb8a22 in the tail nerve cord, visceral ganglion neck and anterior anterior sensory vesicle.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | neck - tail nerve cord - visceral ganglion - |
Lateral view of mid tailbud embryo showing the loss of Citb8a22 expression from the tail nerve cord and visceral ganglion after inhibition of MEK signalling by PD184352 treatment at the 8 cell stage.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | No expression - |
Lateral view of an early tailbud stage embryo showing the expression pattern of citb8a22 clone. The embryos were treated with DMSO. Arrowheads indicate the staining in the central nervous system.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | central nervous system - |
Lateral view of an early tailbud stage embryo showing the expression pattern of citb8a22 clone for which expression was activated by retinoic acid. The embryos were treated with retinoic acid (RA). Arrowheads indicate the staining in the central nervous system.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | central nervous system - |
Vegetal view of a mid tailbud wild type embryo probed for citb8a22 mRNA by in situ hybridization. Staining is detected in part of central nervous system.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | posterior sensory vesicle - tail nerve cord - visceral ganglion - |
Lateral view of a mid tailbud embryo probeded for citb008a22 after electroporation of Ci-IkappaB MO. The expression in the nerve cord was not altered (arrow).
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | tail nerve cord - |
Lateral view of a mid tailbud probed for citb8a22 (KH.C7.455) expression. Original annotation : citb8a22 is expressed along the tail nerve cord in the lateral cells derived from central cells of A-neural plate and from b-neural plate.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | tail nerve cord - |
Mid tailbud embryo probed for citb008a22 (KH.C7.455) and treated with SB431542 (Nodal inhibitor) until early gastrula stage. SB431542-treatment has little effect on citb008a22 expression but seems to affect embryo development.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | tail nerve cord - |
Lateral view of a mid tailbud embryo probed for citb8a22 expression. citb8a22 is expressed along the tail nerve cord in the lateral cells derived from central cells of A-neural plate and from b-neural plate.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | neck - tail nerve cord - visceral ganglion - |
Lateral view of a mid tailbud embryo probed for citb8a22 expression, where Snail is overexpressed in medial lateral neural plate (electroporation of pETR>Snail). citb8a22 expression is strongly repressed in the posterior tail nerve chord.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | neck - tail nerve cord - visceral ganglion - |
Lateral view of a mid tailbud embryo probed for citb8a22 expression, where Nodal is overexpressed in animal territories (electroporation of pFOG>Nodal). citb8a22 expression is strongly repressed in the posterior tail nerve chord.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | tail nerve cord - |
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) |
Lateral view of a late tailbud embryo stained for citb8a22 mRNA.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | neck - posterior sensory vesicle - tail nerve cord - visceral ganglion - |
Lateral view of a late tailbud embryo stained for citb8a22 mRNA after electroporation of Ci-IkappaB MO. The expression in the notochord was not altered (arrow).
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | tail nerve cord - |
Lateral view of a late tailbud probed for citb8a22 expression.
Original annotation : citb8a22 is expressed along the tail nerve cord in the lateral cells derived from central cells of A-neural plate and from b-neural plate.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | lateral TNC ependymal cells - |
Lateral view of a late tailbud probed for citb8a22 expression, following injection of Snail morpholino (Snail-MO (Imai's 25mer MO)). Expression of citb8a22 was unaffected by Snail knockdown.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | lateral TNC ependymal cells - |
Lateral view of a late tailbud probed for citb8a22 expression, following injection of Snail morpholino (Snail-MO_2 (Hudson 2015)). Expression of citb8a22 was unaffected by Snail knockdown.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | lateral TNC ependymal cells - |
Conversion to aniseed format of DBTGR database entry from Kusakabe team.
Original annotation:
Brain vesicle.
| Stained molecule | KH2012:KH.C7.455 (JMJD4; JMJD7; KDM8) |
| Stained region(s) | anterior sensory vesicle - |
