HsaINT0082520 @ hg19
Intron Retention
Gene
ENSG00000091409 | ITGA6
Description
integrin, alpha 6 [Source:HGNC Symbol;Acc:6142]
Coordinates
chr2:173339657-173340413:+
Coord C1 exon
chr2:173339657-173339850
Coord A exon
chr2:173339851-173340324
Coord C2 exon
chr2:173340325-173340413
Length
474 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAT
5' ss Score
7.25
3' ss Seq
AAATGTGATGTTGTCAACAGATA
3' ss Score
6.67
Exon sequences
Seq C1 exon
GTGGCAAGATATAGTTATTGGAGCCCCACAGTATTTTGATAGAGATGGAGAAGTTGGAGGTGCAGTGTATGTCTACATGAACCAGCAAGGCAGATGGAATAATGTGAAGCCAATTCGTCTTAATGGAACCAAAGATTCTATGTTTGGCATTGCAGTAAAAAATATTGGAGATATTAATCAAGATGGCTACCCAG
Seq A exon
GTAGATAATAGATTATGAAATGGCTATGATTTATAGATTATTTGATTGTTTAAATAATAGCGCTGCTGGGCACAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGTGGGCGGATCACCTGAGGTCGGGAGTTCGAGACCAGCCTGACCAACATGGAGAAACTAAAAATACAAATTAACTGGGTGTGGTGGCACATGCCTGTAATACCAGCTACTCCCAGCTTTGGAAAGCTGAGGCAGGAGAATTGCTTGAACCCGGGAGGCAGTGGTTGCGGTGAGCCAAGATTGCGCCATTGCACTCCAGCCTGGGCAACAGGAGCGAAACTCCATCTCAAAAAAAACAAAAAAAAACCCCGAAAAAGCCAAACAAATAAATAATAGTGCTTGTGTCATCTTACTTTAAAACATTTTACTAGAGTGTTTCTAAAGCGTTTGTTAAAATGTTAAAATGTGATGTTGTCAACAG
Seq C2 exon
ATATTGCAGTTGGAGCTCCGTATGATGACTTGGGAAAGGTTTTTATCTATCATGGATCTGCAAATGGAATAAATACCAAACCAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409-ITGA6:NM_000210:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0183918=FG-GAP=FE(53.3=100)
A:
NA
C2:
PF135171=VCBS=PD(4.1=10.0)
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:
GGCAAGATATAGTTATTGGAGCCCC
R:
TGTGTTGGTTTGGTATTTATTCCA
Band lengths:
280-754
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)