HsaINT0082504 @ hg19
Intron Retention
Gene
ENSG00000091409 | ITGA6
Description
integrin, alpha 6 [Source:HGNC Symbol;Acc:6142]
Coordinates
chr2:173351992-173352358:+
Coord C1 exon
chr2:173351992-173352181
Coord A exon
chr2:173352182-173352274
Coord C2 exon
chr2:173352275-173352358
Length
93 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
AGCGTGTGTTTCTTTTACAGGAG
3' ss Score
10.81
Exon sequences
Seq C1 exon
TCAAAAAGGTGTACCAGAACTAGTTCTAAAAGATCAGAAGGATATTGCTTTAGAAATAACAGTGACAAACAGCCCTTCCAACCCAAGGAATCCCACAAAAGATGGCGATGACGCCCATGAGGCTAAACTGATTGCAACGTTTCCAGACACTTTAACCTATTCTGCATATAGAGAACTGAGGGCTTTCCCT
Seq A exon
GTAAGTATTGTTAGAGACCAGCTGAGAGGGGAAAAAAATCAACACTGTGTGGCAAATGAGTGGATTGTGACCTAGCGTGTGTTTCTTTTACAG
Seq C2 exon
GAGAAACAGTTGAGTTGTGTTGCCAACCAGAATGGCTCGCAAGCTGACTGTGAGCTCGGAAATCCTTTTAAAAGAAATTCAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409-ITGA6:NM_000210:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.344 A=NA C2=0.143
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(13.2=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(5.7=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:
GCCCTTCCAACCCAAGGAATC
R:
ATTTCCGAGCTCACAGTCAGC
Band lengths:
182-275
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)