HsaINT0082870 @ hg19
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:6158]
Coordinates
chr17:73727893-73728320:+
Coord C1 exon
chr17:73727893-73728054
Coord A exon
chr17:73728055-73728243
Coord C2 exon
chr17:73728244-73728320
Length
189 bp
Sequences
Splice sites
5' ss Seq
CTGGTACAA
5' ss Score
2.41
3' ss Seq
CATGGTCTCTCTCATTCCAGCAA
3' ss Score
9.16
Exon sequences
Seq C1 exon
GGTATATACCAGGTGCAGCTGCGGGCCCTTGAGCACGTGGATGGGACGCACGTGTGCCAGCTGCCGGAGGACCAGAAGGGCAACATCCATCTGAAACCTTCCTTCTCCGACGGCCTCAAGATGGACGCGGGCATCATCTGTGATGTGTGCACCTGCGAGCTG
Seq A exon
GTACAACGCAGCCCCGCAGGGCGGGAGGGGAGAGCTGAGCCAAGCACCCAGGGACCCTGAGGAATGAAGCAGGACTCCTGTGCCCCATATCCCTTGTGGGGTTTCCCGAGGCACACAGGAGAGCGGAAGTGTCCAGTGGCCCCGGTCCTGCTCCCCCGACGCACCCCACCATGGTCTCTCTCATTCCAG
Seq C2 exon
CAAAAAGAGGTGCGGTCAGCTCGCTGCAGCTTCAACGGAGACTTCGTGTGCGGACAGTGTGTGTGCAGCGAGGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470-ITGB4:NM_001005619:10
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:
PF0036213=Integrin_beta=PD(11.7=90.7)
A:
NA
C2:
PF079748=EGF_2=PU(78.6=84.6)
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:
GGTATATACCAGGTGCAGCTGC
R:
CTCGCTGCACACACACTGTC
Band lengths:
234-423
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)