DreINT0047005 @ danRer10
Intron Retention
Gene
ENSDARG00000013351 | cirbpb
Description
cold inducible RNA binding protein b [Source:ZFIN;Acc:ZDB-GENE-030131-5841]
Coordinates
chr22:18520304-18520624:-
Coord C1 exon
chr22:18520516-18520624
Coord A exon
chr22:18520411-18520515
Coord C2 exon
chr22:18520304-18520410
Length
105 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
TTCATTTTATTTTTTTATAGTTG
3' ss Score
7.86
Exon sequences
Seq C1 exon
GTTATCATCATGTCTGACGAGGGAAAGCTTTTCATCGGTGGTCTGAGCTATGATACAACAGAACAGTCCTTGGAGGAAGCATTCTCCAAATATGGAACCATTGCCAAAG
Seq A exon
GTTTGTATTTAGTTCCATTTTACGTGTGTATTTGTATACTTTTATATTAATTTGTATATGTGTGTGTAAAATTAATTTGTAATTTTTCATTTTATTTTTTTATAG
Seq C2 exon
TTGATGTTATCAGAGACCGTGAAACTGACCGTTCTAGAGGCTTTGGCTTTGTGACCTTTGAAAATCCAGAAGATGCTAAGGATGCCATGGCTGCCATGAATGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013351:ENSDART00000105404:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.446
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(36.6=70.3)
A:
NA
C2:
PF0007617=RRM_1=FE(50.7=100)
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:
ATCATGTCTGACGAGGGAAAGC
R:
CTTTCCATTCATGGCAGCCAT
Band lengths:
210-315
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]