BtaINT0038632 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007480 | CIRBP
Description
Bos taurus cold inducible RNA binding protein (CIRBP), mRNA. [Source:RefSeq mRNA;Acc:NM_001034278]
Coordinates
chr7:45355655-45355955:+
Coord C1 exon
chr7:45355655-45355763
Coord A exon
chr7:45355764-45355848
Coord C2 exon
chr7:45355849-45355955
Length
85 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CAGACCTCTCTACTGCACAGTGG
3' ss Score
3.54
Exon sequences
Seq C1 exon
GCCACCATGGCATCAGATGAGGGCAAGCTTTTCGTCGGAGGGCTGAGTTTTGACACCAATGAGCAGTCACTGGAGCAGGTCTTCTCAAAGTATGGACAGATCTCTGAAG
Seq A exon
GTGAGACTGGTGCCAGAGGAGGTGGCTGAGCAGGGCTGCATACAGGGAGGGCGGGGTCCTGACCTCAGACCTCTCTACTGCACAG
Seq C2 exon
TGGTGGTCGTGAAAGACAGGGAGACCCAGCGATCCAGGGGCTTTGGGTTTGTCACCTTTGAAAACATCGACGATGCCAAGGACGCCATGATGGCTATGAATGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007480:ENSBTAT00000004477:2
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=0.111
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(38.0=77.1)
A:
NA
C2:
PF0007617=RRM_1=FE(49.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATCAGATGAGGGCAAGCTT
R:
GTCCTTGGCATCGTCGATGTT
Band lengths:
183-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]