HsaINT0082895 @ hg19
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:6158]
Coordinates
chr17:73751136-73751931:+
Coord C1 exon
chr17:73751136-73751294
Coord A exon
chr17:73751295-73751781
Coord C2 exon
chr17:73751782-73751931
Length
487 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTA
5' ss Score
5.89
3' ss Seq
CTGCGGCCTCCTGTCCCCAGACT
3' ss Score
10.26
Exon sequences
Seq C1 exon
GCCTCCCTCCCATCTGGGAACACGGGAGGAGCAGGCTTCCGCTGTCCTGGGCCCTGGGGTCCCGGAGTCGGGCTCAGATGAAAGGGTTCCCCCCTTCCAGGGGCCCACGAGACTCTATAATCCTGGCTGGGAGGCCAGCAGCGCCCTCCTGGGGCCCAG
Seq A exon
GTAGTACAGGGGTGGCCATCCTGTCTCCACAGCTGTCCTGCTCCATCTGTCATCCAGCCACCATAGCAGCCGCCAGCTGTGCCCACTGCTTCCCCTCCATTCCATCCACAGGACCCCCGCCTGCCCACAGGCGCTAACCACCTGCCCTACCATCAGTGCTGATGCCTAACTCTGCCTCTGCCCTCCCAGGGGGCGGGGCTGGGGCTGGGGCAGGAGAGGGGCCAGGCCAGCTGAGCAGTTGAGGGGGTGGGGCTGGCAGACTCACGGGGCTCACTCTCTTTTGGCACAAGCAGGGCCTGCACCCTGCTGGAGGATGTGCGGTAGGTGCTGGGCAGCCTGGACAGGGTGTTGCAGGGTGAGTGAGTTGTCCAGCCAGCGGTCAGTGTAGACATGCCAGCTGAGGGAGGGAGGTCAGGGGGCAGCACTGTGACTCCCACTGAGACCCTAGCCCCTGCATCTCTGGCTGACTGCGGCCTCCTGTCCCCAG
Seq C2 exon
ACTCTCGCCTGACTGCTGGTGTGCCCGACACGCCCACCCGCCTGGTGTTCTCTGCCCTGGGGCCCACATCTCTCAGAGTGAGCTGGCAGGAGCCGCGGTGCGAGCGGCCGCTGCAGGGCTACAGTGTGGAGTACCAGCTGCTGAACGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470-ITGB4:NM_001005619:33
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.463 A=NA C2=0.235
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004116=fn3=PU(48.8=80.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTGGGAACACGGGAGGAG
R:
GTTCAGCAGCTGGTACTCCAC
Band lengths:
294-781
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)