HsaINT0082903 @ hg19
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:6158]
Coordinates
chr17:73725346-73726585:+
Coord C1 exon
chr17:73725346-73725517
Coord A exon
chr17:73725518-73726321
Coord C2 exon
chr17:73726322-73726585
Length
804 bp
Sequences
Splice sites
5' ss Seq
ACGGTGGGC
5' ss Score
6.83
3' ss Seq
CCCCGCCTTGCCTTCCCCAGAGG
3' ss Score
9.86
Exon sequences
Seq C1 exon
GCTGAAGGAGCCCTGGCCCAACAGTGACCCCCCCTTCTCCTTCAAGAACGTCATCAGCCTGACAGAAGATGTGGATGAGTTCCGGAATAAACTGCAGGGAGAGCGGATCTCAGGCAACCTGGATGCTCCTGAGGGCGGCTTCGATGCCATCCTGCAGACAGCTGTGTGCACG
Seq A exon
GTGGGCACTGGGAAGGGTGCTGCCAGCCTAGGCCAGGGGTGAGCACTTCTGGGCAAGGGCCTGAGCTGCCCCCTGGCCTGCTCTGGTGCCAGGCTCACAGGCCCTGAGGGAAAGCCTGGGAGCCTGCAACCCCTTCACCCTGAGACAAGCTCAGACTCTGTGAGTAGGTCTCAGTTACAATCTGAGTTCAGATGTGCCTGGAGCCACGGTCCCCTGGCCTGAGCAGTCACAGCCTGGTTTCGTATCAGCTACCAAGGCAGACCTGGGCTTTAGCGTTCTGGAATCTTTAGTACCCTGAACCCACCAGCTGCCCAGACTCCACCTGTTCTGGGCATCCAAATAAGCCATTTCCTTTGATATGTACATCCATTTGTTCATTCTGAAAATGACATACCCATATTACTAGGTTAGAAAACAAAGAGCTAGCCAAGGCGTGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGGGGATTGCTTGAATTCAGGATTTGAGACCAGCCTGGGAAACATGGCAAGACCCTGTCTCTACAGAAAACACAAAAATTAGCTGGGTGTGATGCACGCCTGTGGCCCCAGCGCCTTGCGGGGGCCGCATCTCCAGCTCCTGTTTCTCAGCGTTGTCACTCAGTCATGTGCCGTCAGATGCATCTTTCATGAGGGCACTTGCTGTGAATCCAGTGGCTTAAGCCCAGCCCCATGTTGGGACCCGCGTTCCCCGTCCTACACGACGCCGTGATGCGTGTCAGCAGGCAGCCTGCTCAGTGGGCACGCCCCGCCTTGCCTTCCCCAG
Seq C2 exon
AGGGACATTGGCTGGCGCCCGGACAGCACCCACCTGCTGGTCTTCTCCACCGAGTCAGCCTTCCACTATGAGGCTGATGGCGCCAACGTGCTGGCTGGCATCATGAGCCGCAACGATGAACGGTGCCACCTGGACACCACGGGCACCTACACCCAGTACAGGACACAGGACTACCCGTCGGTGCCCACCCTGGTGCGCCTGCTCGCCAAGCACAACATCATCCCCATCTTTGCTGTCACCAACTACTCCTATAGCTACTACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470-ITGB4:NM_001005619:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.190 A=NA C2=0.034
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(13.6=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(20.8=100)
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:
GAACGTCATCAGCCTGACAGA
R:
TGGGGATGATGTTGTGCTTGG
Band lengths:
353-1157
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)