GgaINT0045910 @ galGal4
Intron Retention
Gene
ENSGALG00000007511 | ITGB2
Description
integrin beta-2 precursor [Source:RefSeq peptide;Acc:NP_990582]
Coordinates
chr7:7178395-7178967:-
Coord C1 exon
chr7:7178827-7178967
Coord A exon
chr7:7178580-7178826
Coord C2 exon
chr7:7178395-7178579
Length
247 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
TCTCACTCTGCACCTTCTAGGTC
3' ss Score
8.96
Exon sequences
Seq C1 exon
AACCTCTCTTCACGGATCATCCTGGACCACTCCACCCTGCCAGATGTCCTGGATGTCAAATATGACTCCATCTGCAATAACAACACAGGAGCCAAGAATGAAGCAAGAGGGCAATGCGACAATGTTAAGATCAATGATGAG
Seq A exon
GTATGTTTTCCTGTATCAGGAATGCCATGCAGCTTGCAAGGCTCCTCCTGCCTTTTCTGTCTAATGGCAGGAGCTCTTGTCCCAGACTTTTTGTTCATGTGAATTTAATGTCCAAAATGTCCAGAATGCTCAGGACAATCCTCCATTATGTGTGCACTCAGCCTGAGGCCAGTACTACTCTATTGCTACTGAAGCTACCTGATGGTCTCTAGCCCTTCCCTCCCTCTTCTCACTCTGCACCTTCTAG
Seq C2 exon
GTCACCTTCAAAGTGAAGGTCACAGCAAATGAGTGCATCAAAAGCCAGTCCTTCACCATCCGGCCCCTGGGCTTCACAGACACGCTCACTGTGCACCTGGACAGCATCTGTGACTGTGACTGCAGAGAGCAGCCTGATCCAACTGCCTGCAGTGGAAATGGCAAGGTCGTCTGTGGGATCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007511:ENSGALT00000012144:10
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(11.0=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.1=61.3),PF079748=EGF_2=PU(65.6=33.9)
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:
GGATCATCCTGGACCACTCCA
R:
GACGACCTTGCCATTTCCACT
Band lengths:
299-546
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]