BtaINT0077938 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012897 | ITGA7
Description
integrin, alpha 7 [Source:HGNC Symbol;Acc:HGNC:6143]
Coordinates
chr5:57895647-57895969:+
Coord C1 exon
chr5:57895647-57895745
Coord A exon
chr5:57895746-57895843
Coord C2 exon
chr5:57895844-57895969
Length
98 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
CTTCGCCCCTCCCTCCCCAGATC
3' ss Score
13.15
Exon sequences
Seq C1 exon
GAGTACTCAGCTGTGAAGTCTCTGGAAGTGATTGTTCGAGCCAACATCACTGTGAAATCCTCCATCAAGAACTTGCTGCTCAGAGATGCTTCCACGGTG
Seq A exon
GTGAGCTGCCTGGCGCAAGGCTCACGGGGCGGTGCGGCCAGGGGAACTTGTCTCTCCAGTTGCTCCAGCCCTTGCGCCCTTCGCCCCTCCCTCCCCAG
Seq C2 exon
ATCCCGGTGATGGTGTACCTGGACCCCGCGGCTGTGGCAGCAGAAGGAGTCCCCTGGTGGGTCATCCTGTTGGCTGTACTAGCCGGGCTGCTGGTATTGGCGCTGCTGGTGCTGCTCATGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012897:ENSBTAT00000017145:32
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:
NO
A:
NA
C2:
PF0035715=Integrin_alpha=PU(0.1=0.0)
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:
ACTCAGCTGTGAAGTCTCTGGA
R:
TACAGCCAACAGGATGACCCA
Band lengths:
173-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]