GgaINT0127610 @ galGal4
Intron Retention
Gene
ENSGALG00000002389 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr18:4711162-4711732:-
Coord C1 exon
chr18:4711561-4711732
Coord A exon
chr18:4711426-4711560
Coord C2 exon
chr18:4711162-4711425
Length
135 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACA
5' ss Score
5.19
3' ss Seq
TCTTTTCTCCCCATCTGTAGGAC
3' ss Score
11.26
Exon sequences
Seq C1 exon
GCTCCGTGAGCCATGGAACAACGCCGACTCCCCCTTCTCCTTCAAGAACGTCATCCGCCTGACCAACAACATCAACTACTTCAGCCAGGAGCTCAGGAAGGAGCGCATCTCTGGAAACCTGGATGCGCCCGAAGGTGGCTTCGATGCCATCCTGCAGACTGCTGTTTGCAAG
Seq A exon
GTGACAGTGGCTGGGGAGATGGGAGGCAAATGGTTGGGTTCTGGTCTGGATGAGTTGGGTTTTCCAAGCCCTACCAATGACCACAAGTGCTGTGTGGTGGGCTCAGAGGTCAAGGTCTTTTCTCCCCATCTGTAG
Seq C2 exon
GACAAGATTGGCTGGAGGAAGGACAGCACGCATTTGCTTGTGTTCTCCACTGAGTCAGCCTTTCACTATGAAGCTGATGGCACCAACGTCCTGGCAGGGATCCTGGCGAGGAATGACGAGGAGTGTCACCTGGACACCCATGGCACCTACGTGTATGACACCAAGCAGGACTACCCCTCGGTGCCCACGCTGGTGCGCCTGCTGGGTCAGCACAACATCATTCCCATCTTTGCTGTCACCAACCACTCCTACAGCTACTACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.069 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(13.5=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(20.7=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:
ATCCGCCTGACCAACAACATC
R:
CCAGGTGACACTCCTCGTCAT
Band lengths:
253-388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]