BtaINT0038633 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007480 | CIRBP
Description
Bos taurus cold inducible RNA binding protein (CIRBP), mRNA. [Source:RefSeq mRNA;Acc:NM_001034278]
Coordinates
chr7:45355849-45356187:+
Coord C1 exon
chr7:45355849-45355955
Coord A exon
chr7:45355956-45356048
Coord C2 exon
chr7:45356049-45356187
Length
93 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TGTTCACTCTTGGTCTCCAGTCT
3' ss Score
6.5
Exon sequences
Seq C1 exon
TGGTGGTCGTGAAAGACAGGGAGACCCAGCGATCCAGGGGCTTTGGGTTTGTCACCTTTGAAAACATCGACGATGCCAAGGACGCCATGATGGCTATGAATGGGAAG
Seq A exon
GTGAGGGGTGGCCACTTTGGGGTCCGGAGGGTCTGGGCTGCAGACCTAGGGCGGGAGGTACAGAGGCTTACCGTGTTCACTCTTGGTCTCCAG
Seq C2 exon
TCTGTGGATGGGCGGCAGATCCGGGTGGACCAGGCAGGCAAGTCATCTGATAACCGATCCCGTGGATACCGTGGTGGCTCTGCTGGAGGCCGGGGCTTCTTCCGTGGGGGCCGGGGCCGGGGCCGTGGTTTCTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007480:ENSBTAT00000004477:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.723
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(49.3=100)
A:
NA
C2:
PF0007617=RRM_1=PD(9.9=14.9)
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:
TGGTCGTGAAAGACAGGGAGA
R:
CGGTATCCACGGGATCGGTTA
Band lengths:
175-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]