HsaINT0082499 @ hg38
Intron Retention
Gene
ENSG00000091409 | ITGA6
Description
integrin subunit alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:172479641-172480051:+
Coord C1 exon
chr2:172479641-172479739
Coord A exon
chr2:172479740-172479989
Coord C2 exon
chr2:172479990-172480051
Length
250 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
ATGTGTTTGATTTTATTCAGCCT
3' ss Score
5.61
Exon sequences
Seq C1 exon
ATCCCGGCCTGTGATTAATATTCAGAAAACCATCACAGTAACTCCTAACAGAATTGACCTCCGCCAGAAAACAGCGTGTGGGGCGCCTAGTGGGATATG
Seq A exon
GTGAGCATCCCTCTGTCTTGGTGGGATCCCCCTCAGTTTCCCACCTCCACTTCATGATGACTCTATTGTCCTGAGGAGCCACAGGGAAGATGACAGGAGTGCTGGGCAAAGGGAAGAGGGTCTGTCAAGTGTTTTTATAACATGTTGATCATCAATGGGCATTGGGGGGATTGGAGAGCTAGGGAACATGTTGGGTTTTTTCCACTGCAATAATGGATCTTTTAAGAAATATGTGTTTGATTTTATTCAG
Seq C2 exon
CCTCCAGGTTAAATCCTGTTTTGAATATACTGCTAACCCCGCTGGTTATAATCCTTCAATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409:ENST00000264107:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=PU(6.7=94.1)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(4.4=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:
TCCCGGCCTGTGATTAATATTCA
R:
TGAAGGATTATAACCAGCGGGG
Band lengths:
156-406
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