HsaALTA1008963-3/3 @ hg38
Alternative 3'ss
Gene
ENSG00000091409 | ITGA6
Description
integrin subunit alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:172479990-172484942:+
Coord C1 exon
chr2:172479990-172480051
Coord A exon
chr2:172484545-172484781
Coord C2 exon
chr2:172484782-172484942
Length
237 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGT
5' ss Score
6.69
3' ss Seq
GGTTTTAACTTATTCTTGAGCTC
3' ss Score
-4.9
Exon sequences
Seq C1 exon
CCTCCAGGTTAAATCCTGTTTTGAATATACTGCTAACCCCGCTGGTTATAATCCTTCAATAT
Seq A exon
CTCCCCCAGGTGGCACAATGAAAATTTAACTTTGAAACATTGTTAACAGCAAAAGGAAGGAAAAGACAGCTTGATTTGAACCATCACAATTGTGCAAATGCATATTACCAGGAAATATGAAGAGAAACAATGGCAATGTTTTCTACAAGGAATTAAAATCTTAAAAGGAGTTCAACATGCTTGTGGCTGGATTGTGCATGAATGCACTTACGTTAATATGATTTTAATTTTATCTAG
Seq C2 exon
CAATTGTGGGCACACTTGAAGCTGAAAAAGAAAGAAGAAAATCTGGGCTATCCTCAAGAGTTCAGTTTCGAAACCAAGGTTCTGAGCCCAAATATACTCAAGAACTAACTCTGAAGAGGCAGAAACAGAAAGTGTGCATGGAGGAAACCCTGTGGCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409-33-22,33-21,33-20-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.278
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(4.4=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(11.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
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:
TTTTGAATATACTGCTAACCCCGCT
R:
TGTAGCCACAGGGTTTCCTCC
Band lengths:
204-441
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains