BtaINT0141845 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006010 | STAB2
Description
Bos taurus stabilin 2 (STAB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206679]
Coordinates
chr5:67705260-67705553:+
Coord C1 exon
chr5:67705260-67705358
Coord A exon
chr5:67705359-67705445
Coord C2 exon
chr5:67705446-67705553
Length
87 bp
Sequences
Splice sites
5' ss Seq
ATTGCAAGT
5' ss Score
0.79
3' ss Seq
CCTGTCTCTCTCCATCACAGCAA
3' ss Score
9.19
Exon sequences
Seq C1 exon
GTTCTGATTCCCCAGAGAGGTCTAACTGGCTCCTTACCAAACCTGCTCACCCGACTGGACCAGATGCCTGACTATTCCAGCTTCCGGGGCTACATCATT
Seq A exon
GCAAGTACCACATCCTCTGCATGACCCTCTGCTCAGGTTACCTGGGAACAGAAGTCCCTCACGTGCTCCTGTCTCTCTCCATCACAG
Seq C2 exon
CAATATAACCTGGCGACTGCGATCGAGGCTGCTGATGCTTACACGGTGTTTGCTCCAAACAATGATGCCATCGAGAGTTACATCCGAGAGAAGAAGGTCACAACTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006010:ENSBTAT00000007896:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0246917=Fasciclin=PD(2.4=9.1),PF0246917=Fasciclin=PU(8.3=30.3)
A:
NA
C2:
PF0246917=Fasciclin=FE(29.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAGAGAGGTCTAACTGGCT
R:
CGGATGTAACTCTCGATGGCA
Band lengths:
175-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]