DreINT0047004 @ danRer10
Intron Retention
Gene
ENSDARG00000013351 | cirbpb
Description
cold inducible RNA binding protein b [Source:ZFIN;Acc:ZDB-GENE-030131-5841]
Coordinates
chr22:18520516-18521263:-
Coord C1 exon
chr22:18521224-18521263
Coord A exon
chr22:18520625-18521223
Coord C2 exon
chr22:18520516-18520624
Length
599 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACA
5' ss Score
8.1
3' ss Seq
TCAACATTTTTTTTTTTCAGGTT
3' ss Score
11.5
Exon sequences
Seq C1 exon
CGCTGTACAACCGTCCTGTGTGTTCAACAGAAACTCTGAG
Seq A exon
GTAACAAATATGATCTTTCTTGCCATGTTTTTGGTCTATACTGAAGCATTAATTTGATTCGGCTTGTTCTGTTGATGTTTAGTTTGTAATTCTGCTTTATTGTTCGCATTTAGGCGATATTTGATATACTTTCATATTTACAAGTATTTAAAATAGGTATTGTGTAATGTTCCCCGGTGTGACTACCGTTTTACCTAAAAGGTCTCAAATGCAGCATGTAAGTAGTCGCGGAATTGTACGATTTTGTGACTTTCTTTGTTCACGCTGCTGGCGTGTCGTTGACGCTAATTGCTTTCCGTGACCTAGTTCCACTGACCTACTTTTTACAAAACCGGGTTTAGCATTAAGTAATCGTTTCACTGTATTTTTTTAAAACGAGGATCGATCAAGATGTTAAGTATTGGGTGCGCTGATGTATTTAAGATTAAAGCCTTTCTTTGAAGCAAAATGGCTGCAGCACGTTGTGAGGAAGGGGGATGGTTAGAAAATGGCGTTTCCTTGTGACGCACTTTTAGGTGCGGTGTTTTTGCTTTCGATTCTCGTGTGCACGCGGTGATCTATATACTTTACGCTTTTAAGTCAACATTTTTTTTTTTCAG
Seq C2 exon
GTTATCATCATGTCTGACGAGGGAAAGCTTTTCATCGGTGGTCTGAGCTATGATACAACAGAACAGTCCTTGGAGGAAGCATTCTCCAAATATGGAACCATTGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013351:ENSDART00000105404:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.010
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0007617=RRM_1=PU(36.6=70.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]