GgaINT0045904 @ galGal4
Intron Retention
Gene
ENSGALG00000007511 | ITGB2
Description
integrin beta-2 precursor [Source:RefSeq peptide;Acc:NP_990582]
Coordinates
chr7:7180806-7181546:-
Coord C1 exon
chr7:7181363-7181546
Coord A exon
chr7:7180977-7181362
Coord C2 exon
chr7:7180806-7180976
Length
386 bp
Sequences
Splice sites
5' ss Seq
TAAGTATGA
5' ss Score
1.43
3' ss Seq
CTGGTGTCTCTATCCCACAGGGG
3' ss Score
11.09
Exon sequences
Seq C1 exon
AGTTTCACCAAAGCTGGTGAGCCAGACTCCAACCGCTGTGACACCATAGAACAGCTGCAGCAGAGGGGATGCCCAGAGAATGAGATTGAGTTTCCAGTAAATGAAATCAAAAGGACGCAGGACAGTGCGTTCAGCAATAAGATACAGCTGACTCCCCAGGAGGTGCATCTGAAGCTGAGGATAA
Seq A exon
GTATGATTCCTGTGTTGTTGCTAATAACCTTCTGCCCATCCCCACACTCAGATGGGTAGCAGCTGAAGCTGGCCAACATTTGTTGCACATGCTTTTTACCCTTTCTTCAAAACTGAATGGGCTGTTGGCAAGAGATGACCCTGCAGGGGACCTGAGGGACCTCACAGGAGCTGAAAAGTCTTGAAGAAAAAGCTTTTGTGAAGATGTGAGGGCAGAGGACACTTCAGGGGGGATAAGCATGGAGCCTGTAGCTGTGCTGGGGTGTGGTGGCATGTCGCACGTTTCCTCCCCATTTTCTCCCAAAGAAAGATCCCAGTGTGGGGTAGGCAGTGAGGCAGGACATGATCCACAGCACAGTGGCTGAACCTGGTGTCTCTATCCCACAG
Seq C2 exon
GGGAGCCTGCTGAATTTGATGTGAAGTTTCGTCGTGCTACGGGGTACCCAATTGATATCTACTACCTCATGGACCTCTCCTATTCCATGCTGGATGACCTAGAGAACGTGAAGAAGCTGGGAGGACAACTGCTTAGAGCCCTGGAGAGCACCACACCCTCTCGCCGCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007511:ENSGALT00000012144:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(14.6=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(13.7=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:
TGGTGAGCCAGACTCCAACC
R:
CTATGCGGCGAGAGGGTGT
Band lengths:
341-727
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]