DreINT0106163 @ danRer10
Intron Retention
Gene
ENSDARG00000023362 | nr5a1b
Description
nuclear receptor subfamily 5, group A, member 1b [Source:ZFIN;Acc:ZDB-GENE-040702-6]
Coordinates
chr21:8184450-8185253:+
Coord C1 exon
chr21:8184450-8184591
Coord A exon
chr21:8184592-8185134
Coord C2 exon
chr21:8185135-8185253
Length
543 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTATATGTGTGTGTGCGCAGGCG
3' ss Score
9.61
Exon sequences
Seq C1 exon
CACACACCACTCGGGTTTTACCGGGGAAACACGCGCACACTGAAGCCGCAGGATCGCGCAGTTTTTTCGGCTTGTGTTTACATCCCTGACGCAGAGATCAGCAGCACTGAAGCACCGCAGAGGAGCAGAGACTCACTGACAG
Seq A exon
GTAAGAGTTCACGCAATTGGAGGGCTTTGCGTTTTATTTATTACATTATATCAGTGTTGACAAGAAGTTAAAACAAAATAAAACAGTTTGGCACATTACATTGTTTTTATTATTACTATCTTAATCGTTTCTTCTTTTTTAGAAATTAATTTACAACCTTTTTGAGCCTAGACATAAATTATTAAGCTAATGTGTCAAGTATAATGCGTTATCAAAATCATGCATATGTAATTATTAATGAAAATAACATAAATTTGCTTTTATAGCCTATATACTAAATATGGTTATTGAAAGTCTTAATCGTGCAATTTGTTTATTAATTAATCTGAAACCTAGTCGTTCATAATTTTAAAATCTGGTATAGTCTAAATAGTGTGTATATATATATATATATATTTAGGTGCTTTAAAAACAAAACAAGAAGCAAATTATGTATCGGAAGAACATGTACTAATTTCCAAAGCAATATAAAATTATAATTTTTTTTTATGAGAGGATATATTTGCTTCATTTGAAGTGTGTTTTATATGTGTGTGTGCGCAG
Seq C2 exon
GCGCTCGGCGGGGCGGGATGGACTACAGTTATGATGCGGACCTGGAAGAGATGTGTCCGGTGTGCGGGGATAAAGTTTCTGGCTATCATTATGGTTTATTAACCTGCGAAAGCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000023362:ENSDART00000028265:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0010513=zf-C4=PU(32.9=67.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTTTTACCGGGGAAACAC
R:
CTTGCAGCTTTCGCAGGTTAA
Band lengths:
249-792
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]