HsaINT0082873 @ hg19
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:6158]
Coordinates
chr17:73732132-73732467:+
Coord C1 exon
chr17:73732132-73732235
Coord A exon
chr17:73732236-73732368
Coord C2 exon
chr17:73732369-73732467
Length
133 bp
Sequences
Splice sites
5' ss Seq
GGGGTAGGC
5' ss Score
5.3
3' ss Seq
GGTGCCCCCTCCTACCCCAGGGC
3' ss Score
8.2
Exon sequences
Seq C1 exon
ACCGAGGACGCTGCTCCATGGGCCAGTGTGTGTGTGAGCCTGGTTGGACAGGCCCAAGCTGTGACTGTCCCCTCAGCAATGCCACCTGCATCGACAGCAATGGG
Seq A exon
GTAGGCCTGGGCATAAGACAGACAGTGTCTGTCAGCACCACCCACCCTCTCCAGAGAGAACCCTATGGAGAGAGGAGAGGGAGCAGGCAGGGATGGGGCACAGCTGGCTCACTGGTGCCCCCTCCTACCCCAG
Seq C2 exon
GGCATCTGTAATGGACGTGGCCACTGTGAGTGTGGCCGCTGCCACTGCCACCAGCAGTCGCTCTACACGGACACCATCTGCGAGATCAACTACTCGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470-ITGB4:NM_001005619:13
Average complexity
IR-S
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),PF079748=EGF_2=PU(15.2=14.3)
A:
NA
C2:
PF079748=EGF_2=PD(78.8=78.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGAGGACGCTGCTCCAT
R:
AGTTGATCTCGCAGATGGTGT
Band lengths:
194-327
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)