HsaINT0082896 @ hg19
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:6158]
Coordinates
chr17:73751782-73752698:+
Coord C1 exon
chr17:73751782-73751931
Coord A exon
chr17:73751932-73752509
Coord C2 exon
chr17:73752510-73752698
Length
578 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
CCCCCACCTGATCCCCCCAGGTG
3' ss Score
9.2
Exon sequences
Seq C1 exon
ACTCTCGCCTGACTGCTGGTGTGCCCGACACGCCCACCCGCCTGGTGTTCTCTGCCCTGGGGCCCACATCTCTCAGAGTGAGCTGGCAGGAGCCGCGGTGCGAGCGGCCGCTGCAGGGCTACAGTGTGGAGTACCAGCTGCTGAACGGCG
Seq A exon
GTGAGGCATGGTGGCTGCCAGGCTGCGGGGTGCAGCCCTGCAAGGCCTGGCCCCAGTGTGACACATAGGGTACCTCAGCTGTGTCAGGAACCCACCCAAGTCCCTTGAGCGCTAAAGCCCCCATCCAGCCTGAGAGGGTCTCCCACCCCATTCTCCACCCCACTTCTTTGCCTCCCCTCTTCTGAGGTCTCACCCACCTCCCTGGGCCTCTCTCCTGGTCATTCTCTGCTAGGTTTTGCCTAACAAGGCCCCTTTGGGCTGGGATCCTAGGGCCTCTGCTGGCCTGAGATGCCTTTGGGGGAACAAGGAAGTGGCACTTCCCTGGGCAGGCACATTCAAAGCAGCATGACCAGGATGCAGGATGTTGCCTAAACATGAGTGGGATTACAGGCTCCACTCTTGTATAGTACACAATCTGAACAACCAGCCATACCATACTGTACCCAACCTGTACCCAAACCACAGCTAGTCCTGGGTGGGTGATAACTAGGTCTCGATGGCAGCTTAGGGACGAGGAGGATCAGGCCAGGGGTGGGAGTAACACTGCACTACTGTGTGCCCCCACCTGATCCCCCCAG
Seq C2 exon
GTGAGCTGCATCGGCTCAACATCCCCAACCCTGCCCAGACCTCGGTGGTGGTGGAAGACCTCCTGCCCAACCACTCCTACGTGTTCCGCGTGCGGGCCCAGAGCCAGGAAGGCTGGGGCCGAGAGCGTGAGGGTGTCATCACCATTGAATCCCAGGTGCACCCGCAGAGCCCACTGTGTCCCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470-ITGB4:NM_001005619:34
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.235 A=NA C2=0.234
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.8=80.4)
A:
NA
C2:
PF0004116=fn3=PD(50.0=65.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCTCGCCTGACTGCTGG
R:
AGGGGACACAGTGGGCTC
Band lengths:
334-912
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)