GgaINT0045909 @ galGal4
Intron Retention
Gene
ENSGALG00000007511 | ITGB2
Description
integrin beta-2 precursor [Source:RefSeq peptide;Acc:NP_990582]
Coordinates
chr7:7178827-7179340:-
Coord C1 exon
chr7:7179251-7179340
Coord A exon
chr7:7178968-7179250
Coord C2 exon
chr7:7178827-7178967
Length
283 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TGCCCATCATTCCCTCACAGAAC
3' ss Score
8.64
Exon sequences
Seq C1 exon
AAACTCAGTGATATGATCCCAAAGTCAGCAGTAGGGGAGTTGAACGAGGACTCCAGCAACATCATTGAACTCATCCAGGTGGCCTACAAT
Seq A exon
GTAAGTGCTGGGTGAGAACTTACTTTGCCTATTTGGCAGAGAAAAGTTCACATCATGTGTCATCATCATCTGAGAGCAGGTGAGACTGGGACTTTGAGGATGGGACTCTGCCCACAGCCAGCAAGAGGTTACCACCTCTCTGATGCATTTCCTGCCCCACTACAGTCAGCTGAGCGCATGTCCTGAGGCTCACCCTACACTTGTCCCCTGGGCTGGGGGAAGCAACCCCACATCTCCATGCTTCAGTCCCTCCTCTGGATAACTGCCCATCATTCCCTCACAG
Seq C2 exon
AACCTCTCTTCACGGATCATCCTGGACCACTCCACCCTGCCAGATGTCCTGGATGTCAAATATGACTCCATCTGCAATAACAACACAGGAGCCAAGAATGAAGCAAGAGGGCAATGCGACAATGTTAAGATCAATGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007511:ENSGALT00000012144:9
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:
PF0036213=Integrin_beta=FE(7.0=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(11.0=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:
ACTCAGTGATATGATCCCAAAGTCA
R:
TCATCATTGATCTTAACATTGTCGCA
Band lengths:
228-511
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]