GgaINT0127617 @ galGal4
Intron Retention
Gene
ENSGALG00000002389 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr18:4708533-4708859:-
Coord C1 exon
chr18:4708756-4708859
Coord A exon
chr18:4708632-4708755
Coord C2 exon
chr18:4708533-4708631
Length
124 bp
Sequences
Splice sites
5' ss Seq
GGGGTACGT
5' ss Score
7.73
3' ss Seq
TGTCCCCTCTGCTCCCCCAGGGC
3' ss Score
11.74
Exon sequences
Seq C1 exon
ATCGCGGTCGCTGCTCCAAGGGCGCGTGTGTATGCGAGAGCGGCTGGGAGGGCCCTGGCTGTGAGTGTCCCACAAGCAATGACACCTGCATTGACAGCAGGGGG
Seq A exon
GTACGTCCCAGGCACCCACAGCGATGTCCCAGTGCTGGGGACACTGGGAGCCAGCAGCAAAACCCGGTGTCACCGCCGGTGTGTGGCTGCTCTGTGACACCCGATGTCCCCTCTGCTCCCCCAG
Seq C2 exon
GGCATCTGCAACAACCAGGGGAGGTGCAAGTGCGGGCGGTGCATCTGTGACAAGACATCCCTGTACACCAGCTCCACCTGTGAGATCAGCTACTCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:14
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:
PF079748=EGF_2=PD(64.5=57.1)
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:
CCAAGGGCGCGTGTGTATG
R:
AGGGAGTAGCTGATCTCACAGG
Band lengths:
187-311
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]