HsaINT0082501 @ hg38
Intron Retention
Gene
ENSG00000091409 | ITGA6
Description
integrin subunit alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:172484782-172485264:+
Coord C1 exon
chr2:172484782-172484942
Coord A exon
chr2:172484943-172485120
Coord C2 exon
chr2:172485121-172485264
Length
178 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ACTGCATGCTTTTCATGCAGGAT
3' ss Score
8.58
Exon sequences
Seq C1 exon
CAATTGTGGGCACACTTGAAGCTGAAAAAGAAAGAAGAAAATCTGGGCTATCCTCAAGAGTTCAGTTTCGAAACCAAGGTTCTGAGCCCAAATATACTCAAGAACTAACTCTGAAGAGGCAGAAACAGAAAGTGTGCATGGAGGAAACCCTGTGGCTACAG
Seq A exon
GTGAGGGCTGCAGATGGTCACATCTGTTTTATGAAGAGGACAGAAAAAGGTTATATGGTGATATACAGATTTCTGAAATTTATTCTGGCAACCTCTTAATCAATACAAAATCATTGTTTTGGAATTCCCCAATAGCATGTACACCCCACTTAACTCTGACTGCATGCTTTTCATGCAG
Seq C2 exon
GATAATATCAGAGATAAACTGCGTCCCATTCCCATAACTGCCTCAGTGGAGATCCAAGAGCCAAGCTCTCGTAGGCGAGTGAATTCACTTCCAGAAGTTCTTCCAATTCTGAATTCAGATGAACCCAAGACAGCTCATATTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409:ENST00000264107:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.278 A=NA C2=0.375
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(11.1=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGCTATCCTCAAGAGTTCAGT
R:
TGAGCTGTCTTGGGTTCATCTG
Band lengths:
255-433
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