HsaALTD1006616-2/3 @ hg38
Alternative 5'ss
Gene
ENSG00000091409 | ITGA6
Description
integrin subunit alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:172474055-172474977:+
Coord C1 exon
chr2:172474055-172474236
Coord A exon
chr2:172474237-172474265
Coord C2 exon
chr2:172474929-172474977
Length
29 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
GTTTTTCTTTGGACTCAGGGAAAGGTATTGTTTCTAAAGATGAGATCACTTTTGTATCTGGTGCTCCCAGAGCCAATCACAGTGGAGCCGTGGTTTTGCTGAAGAGAGACATGAAGTCTGCACATCTCCTCCCTGAGCACATATTCGATGGAGAAGGTCTGGCCTCTTCATTTGGCTATGAT
Seq A exon
GTGGCGGTGGTGGACCTCAACAAGGATGG
Seq C2 exon
GTGGCAAGATATAGTTATTGGAGCCCCACAGTATTTTGATAGAGATGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409-23-12,24-12,25-12-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF0183918=FG-GAP=PU(43.3=18.3)
A:
NA
C2:
PF0183918=FG-GAP=FE(53.3=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGTGGTTTTGCTGAAGAGA
R:
ACTGTGGGGCTCCAATAACTA
Band lengths:
128-157
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains