BtaINT0077893 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017266 | ITGA6
Description
integrin, alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:24154099-24154576:-
Coord C1 exon
chr2:24154416-24154576
Coord A exon
chr2:24154243-24154415
Coord C2 exon
chr2:24154099-24154242
Length
173 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTCTCTGCATTCTTTTCAGGAA
3' ss Score
11.43
Exon sequences
Seq C1 exon
CCATTGTGGGCACTCTGGAGGCTGAAAAGGAAAGAAGAAAATCTGGGCTGTCGTCAAGAGTTCAGTTTCGAAACCAAGGTTCTGAGCCCAAGTATTCGCAAGAGCTCACTCTGAACAGACAGAAACAGAAGGCGTGCATGGAAGAAACCCTCTGGCTCCAG
Seq A exon
GTGAGGGCCGCAGGCAGATCAGTTCTGTCATGCAGGTACATGGTCACAAGTGTAGATGTGACCTTTTATATAAATACTAGCAACACATTATCCAGGACAAAGGAAAGCATTGTTTTGGAGTTCTCTGGTAGTGTTTATAGCATGCTTCAACTGTGTCTCTGCATTCTTTTCAG
Seq C2 exon
GAAAACATCAGAGATAAACTGCGTCCCATTCCCATAACTGCTTCAGTGGAGATCCAGGAGCCAAGCACTCGGAGGCGAGTGAATTCGCTTCCAGAAGTTCTCCCAATTCTAAATTCAAATGAACCCAAGTTTGTTCATACAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017266:ENSBTAT00000022960:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.278 A=NA C2=0.292
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(11.1=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(9.9=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:
GCACTCTGGAGGCTGAAAAGG
R:
TGGGAGAACTTCTGGAAGCGA
Band lengths:
257-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]