HsaALTD1006620-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000091409 | ITGA6
Description
integrin subunit alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:172489485-172491122:+
Coord C1 exon
chr2:172489485-172489613
Coord A exon
chr2:172489614-172489658
Coord C2 exon
chr2:172491024-172491122
Length
45 bp
Sequences
Splice sites
5' ss Seq
ACGGTATGT
5' ss Score
9.94
3' ss Seq
TTGGATATAATTTTTTTCAGGAG
3' ss Score
6.02
Exon sequences
Seq C1 exon
GTAATAAACTTAGGTAAACCTCTTACAAACCTCGGCACAGCAACCTTGAACATTCAGTGGCCAAAAGAAATTAGCAATGGGAAATGGTTGCTTTATTTGGTGAAAGTAGAATCCAAAGGATTGGAAAAG
Seq A exon
GTAACTTGTGAGCCACAAAAGGAGATAAACTCCCTGAACCTAACG
Seq C2 exon
GAGTCTCACAACTCAAGAAAGAAACGGGAAATTACTGAAAAACAGATAGATGATAACAGAAAATTTTCTTTATTTGCTGAAAGAAAATACCAGACTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409-44-38,45-38-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.208
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(12.0=100)
A:
NA
C2:
PF084417=Integrin_alpha2=PD(6.2=12.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTACAAACCTCGGCACAGC
R:
TCCCGTTTCTTTCTTGAGTTGTGA
Band lengths:
138-183
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains