HsaINT0082521 @ hg19
Intron Retention
Gene
ENSG00000091409 | ITGA6
Description
integrin, alpha 6 [Source:HGNC Symbol;Acc:6142]
Coordinates
chr2:173340325-173341241:+
Coord C1 exon
chr2:173340325-173340413
Coord A exon
chr2:173340414-173341122
Coord C2 exon
chr2:173341123-173341241
Length
709 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
GGATGCCCTGTGTATTTCAGGTT
3' ss Score
8.54
Exon sequences
Seq C1 exon
ATATTGCAGTTGGAGCTCCGTATGATGACTTGGGAAAGGTTTTTATCTATCATGGATCTGCAAATGGAATAAATACCAAACCAACACAG
Seq A exon
GTAACCAAATAACCGGGATTTCTACAGCTAGAGTCTCAACTTTTTGCCCTATAATAAAATATTTAGGTTTAAGTGACTTTTCACACAAATCTTATTTTATTTACAAGTCCACAATAGTATAAATTTTTTAAAAATGTATTACTAGAAGATACCTTCAAAATAAATATATAAATGTAATGACTTGCTTGTTCTAATTGTAAAATTTCTTAGATAAGTTAGGAATCAAGGTAATCCAAAGCAAATGAATGTTATTCTACCCTGACGGCATTAAGATAAGAGGAAATACGATATATTCTCTTTAGTAGCATACTAAATAGAGATGAAATTGGTCAAACAAAATAAATGACTGTAACTACATGGAGAATGTAGACACCAAAAATTAAAAATGTCTTTTGAGAAAAATAAGACTTGTAGGGAAGGTAGGGAGATTTGGTTTGAAATGGCCTGATTGACTTAATACAATAAACAAGCTCATCAGAAATGGGCTCTTTTCTGCTTTGAGATACTATGTAAATCGGATGACTTTTATGAAATGAAATGTATGAAGTGTTAGATCATATAGAAATTTATGACTTGTATATAATATAATTTACTTATAAGTGAACTCTCAAATTTCAGTTCAAAAGAAACTTGTGTGTCTTTTTCAAAGCATTGTTAAGAAGCTCATGGTGATAACCTAATGTCCATTCGGATGCCCTGTGTATTTCAG
Seq C2 exon
GTTCTCAAGGGTATATCACCTTATTTTGGATATTCAATTGCTGGAAACATGGACCTTGATCGAAATTCCTACCCTGATGTTGCTGTTGGTTCCCTCTCAGATTCAGTAACTATTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409-ITGA6:NM_000210:8
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:
PF135171=VCBS=PD(4.1=10.0)
A:
NA
C2:
PF0183918=FG-GAP=WD(100=77.5)
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:
ATATTGCAGTTGGAGCTCCGT
R:
GAAAATAGTTACTGAATCTGAGAGGG
Band lengths:
206-915
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)