GgaINT0127614 @ galGal4
Intron Retention
Gene
ENSGALG00000002389 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr18:4709683-4710156:-
Coord C1 exon
chr18:4709989-4710156
Coord A exon
chr18:4709760-4709988
Coord C2 exon
chr18:4709683-4709759
Length
229 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
TCTTCCCTTTCCCCTTACAGCAA
3' ss Score
12.32
Exon sequences
Seq C1 exon
GGTAAGTTCCAGGTGAGGGTGAAGGCGCTGGAGCACGTGGGTGGGCAGCACGTCTGCACCCTCCCTGAGAAGGACAGGCAGGGCATTATCCATGTGAAACCCACCTCATTGAGCGACAGCCTCCAAGTCCAGGCCTCCGTGGTGTGCGACGTGTGTCCCTGTGAGCAG
Seq A exon
GTACGTACGGGTTGTGCTTGGCCAATGAATGCTGGTCCTGCATTCATTGCTGGCAGGAGGTTTGGGGTTCTGGATCGGGAGACCCAGGAATGCTGCTTGGAGCTCATGGTGTGCTTGATCCTACTGCAAAACTCAGTCTTATGGACAACGCCTTTCCCTTTGCTGTGCCTGAGGTGGCTGTGGGGGAACTGAGACCACCCAGCAGCACCTCTTCCCTTTCCCCTTACAG
Seq C2 exon
CAACCAGATTTCCGCTCACCCAAGTGCAGCTTCCACGGGGACTTCATCTGTGGGCAGTGCATCTGCCATGCAGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:11
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=PD(12.1=91.1)
A:
NA
C2:
NO
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:
GGTAAGTTCCAGGTGAGGGTG
R:
CACAGATGAAGTCCCCGTGGA
Band lengths:
220-449
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]