|
| Status |
Public on Jul 01, 2022 |
| Title |
Eyes from 48 hpf larvae WT for the eMIC domain of srrm3. |
| Sample type |
SRA |
| |
|
| Source name |
Larval eyes
|
| Organism |
Danio rerio |
| Characteristics |
genotype: WT
|
| Growth protocol |
Zebrafish were grown at 28°C 14 h light/10 h dark cycle.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
24 hpf WT fish heads were removed and pulled for RNA extraction using RNA RNeasy Mini kit (QIAGEN). Larvae eyes were removed and from twenty to sixty eyes per genotype were pulled for RNA extraction using RNA RNeasy Micro kit (QIAGEN)
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Raw reads were mapped with vast-tools align v2.5.1
Assembly: danRer10
Supplementary files format and content: Files with raw read counts to each zebrafish gene in Ensembl v80 and cRPKMs.
|
| |
|
| Submission date |
Apr 13, 2022 |
| Last update date |
Jul 01, 2022 |
| Contact name |
Manuel Irimia |
| E-mail(s) |
mirimia@gmail.com
|
| Phone |
+34933160212
|
| Organization name |
Centre for Genomic Regulation
|
| Department |
Systems Biology Unit
|
| Street address |
88 Dr. Aiguader
|
| City |
Barcelona |
| State/province |
Barcelona |
| ZIP/Postal code |
08003 |
| Country |
Spain |
| |
|
| Platform ID |
GPL18413 |
| Series (2) |
| GSE180778 |
Regulation of retina microexons by srrm3 in zebrafish |
| GSE180781 |
Regulation of retina microexons by srrm3 in zebrafish and by SRRM3, SRRM4 and MSI1 in human cell lines |
|
| Relations |
| SRA |
SRX14812924 |
| BioSample |
SAMN27518071 |
