GgaINT0047780 @ galGal4
Intron Retention
Gene
ENSGALG00000009362 | ITGA6
Description
integrin alpha-6 precursor [Source:RefSeq peptide;Acc:NP_990620]
Coordinates
chr7:17221150-17221507:-
Coord C1 exon
chr7:17221318-17221507
Coord A exon
chr7:17221234-17221317
Coord C2 exon
chr7:17221150-17221233
Length
84 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
AATGTGTTCTATTTATTCAGGAA
3' ss Score
8.86
Exon sequences
Seq C1 exon
TGAAAATGGCATTCCAGTGCTTGTTTTAAAAGATCAGAAAGATATTGCCCTGGAAATAACAGTGACAAATAACCCATCTGACGCAAGAAATCCACAGAAAGATGGAGAAGATGCATATGAAGCTAAACTAATTGCAACGTTTCCAGATAGTCTGACTTATTCTGCATTCAGGGAGATGAGAGGATATCCT
Seq A exon
GTAAGTGTTTTTAAGAGAAAGGATATTCAAATTTGAAAATGTTTTTAGCATAAATTGAATTATAAATGTGTTCTATTTATTCAG
Seq C2 exon
GAAAAACAGCTCACATGTGGTGCTAACCAAAATGGCTCTCAAGCAGAGTGTGAACTTGGAAATCCGTTCAAGAGAAATTCCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000038606:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.266 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(13.2=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(5.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCATCTGACGCAAGAAATCC
R:
TCCAAGTTCACACTCTGCTTGA
Band lengths:
179-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]