HsaINT0082519 @ hg19
Intron Retention
Gene
ENSG00000091409 | ITGA6
Description
integrin, alpha 6 [Source:HGNC Symbol;Acc:6142]
Coordinates
chr2:173338783-173339850:+
Coord C1 exon
chr2:173338783-173338993
Coord A exon
chr2:173338994-173339656
Coord C2 exon
chr2:173339657-173339850
Length
663 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
TCCCCTCATTATGTTTTTAGGTG
3' ss Score
10.33
Exon sequences
Seq C1 exon
GTTTTTCTTTGGACTCAGGGAAAGGTATTGTTTCTAAAGATGAGATCACTTTTGTATCTGGTGCTCCCAGAGCCAATCACAGTGGAGCCGTGGTTTTGCTGAAGAGAGACATGAAGTCTGCACATCTCCTCCCTGAGCACATATTCGATGGAGAAGGTCTGGCCTCTTCATTTGGCTATGATGTGGCGGTGGTGGACCTCAACAAGGATGG
Seq A exon
GTGAGAAAGCCTCAGGTTATATTATGCTGCAAATCATTTCTGCTTTGACTAGCTTCTATACGACTGGAGAAGAGCCGTCCTTTCAGGTTCATTGACGTAAAGAATATTTTTATTGCCGCATTTTTACCAGCCTATCTTTATCATTTCTATGATGGCAGCAGACAGACATTCATATCCCTCCCCAGCGTATAGGATTATATTTTTGATTTTCAGTTTTTACTTATATGTTGGGATCATGAGTCTATGAGAATTAAAATTTGAAAAAAATTGACTCAGAAAACACTTGCATGATTCTGTTCTGTGGTTTCATATGGGGCTGATGGAGCATCAGCTCCCGTTGAAAACAGGAATTGGTGATAAAGTAAAAAACAGATATGTGGCTGTTGGTGCCAGTTGGGGGGGTTAGAACAGTGAGGTCTTAATGGGAGTCCTGCTGTACTATGGTTCTAACTCGAGAAATTGGCTTTGAGTTCTTACCCTTAGTATTTTTCTTGGGGCGTTTATTATAGGCTACCTTGGTTTTTAAAAAATGTTATAATTGAGTCATAAATTCTGGAGTTGAGGGCCTTTCTATTATATGTCTTTGTATCCTTAGTACCTAGACTGGTGTTGCTGGTATGTTAGCTGTTGGTTCACGGCTCTTTCCCCTCATTATGTTTTTAG
Seq C2 exon
GTGGCAAGATATAGTTATTGGAGCCCCACAGTATTTTGATAGAGATGGAGAAGTTGGAGGTGCAGTGTATGTCTACATGAACCAGCAAGGCAGATGGAATAATGTGAAGCCAATTCGTCTTAATGGAACCAAAGATTCTATGTTTGGCATTGCAGTAAAAAATATTGGAGATATTAATCAAGATGGCTACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409-ITGA6:NM_000210:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.030
Domain overlap (PFAM):
C1:
PF0183918=FG-GAP=PU(43.3=18.3)
A:
NA
C2:
PF0183918=FG-GAP=FE(53.3=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:
TCTTTGGACTCAGGGAAAGGT
R:
GCCAAACATAGAATCTTTGGTTCCA
Band lengths:
354-1017
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)