DreINT0047006 @ danRer10
Intron Retention
Gene
ENSDARG00000013351 | cirbpb
Description
cold inducible RNA binding protein b [Source:ZFIN;Acc:ZDB-GENE-030131-5841]
Coordinates
chr22:18519998-18520410:-
Coord C1 exon
chr22:18520304-18520410
Coord A exon
chr22:18520119-18520303
Coord C2 exon
chr22:18519998-18520118
Length
185 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGA
5' ss Score
6.12
3' ss Seq
TTGTCGTTTTTGTTTTCCAGCAA
3' ss Score
9.11
Exon sequences
Seq C1 exon
TTGATGTTATCAGAGACCGTGAAACTGACCGTTCTAGAGGCTTTGGCTTTGTGACCTTTGAAAATCCAGAAGATGCTAAGGATGCCATGGCTGCCATGAATGGAAAG
Seq A exon
GTTAGAATTTTAGCCTTTTAATGAATAAAATCTGTAATTTTGAGTGCTAAGACACCATGTATTTGTTGTAAGAGGGTTTTTGTAACGTCTATCCTTTTTTTCTGGGTATTTTTCAGGTTTAGATAAATGTTATTCTAATTTGAATTGTGCATGTTTGAGTCTTTTTTGTCGTTTTTGTTTTCCAG
Seq C2 exon
CAAGTTGATGGTCGCATGATTCGCGTTGATGAAGCTGGCAAATCTGGTGGACGGTCTGGTGGTTTCAGAGGGGGTTCCAGAGGTGGTGGCAGAGGCTTCTTCAGAGGCAGCAGAGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013351:ENSDART00000105404:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.446 A=NA C2=0.951
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(50.7=100)
A:
NA
C2:
PF0007617=RRM_1=PD(11.3=19.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGTTATCAGAGACCGTGAAACT
R:
TCTTCCTCTGCTGCCTCTGAA
Band lengths:
226-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]