HsaINT0082507 @ hg38
Intron Retention
Gene
ENSG00000091409 | ITGA6
Description
integrin subunit alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:172487961-172488228:+
Coord C1 exon
chr2:172487961-172488038
Coord A exon
chr2:172488039-172488125
Coord C2 exon
chr2:172488126-172488228
Length
87 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
GGTGTTTTTTAATTTGACAGAGT
3' ss Score
4.78
Exon sequences
Seq C1 exon
AACAAGCAATCAAGATAATTTGGCTCCAATTACAGCTAAAGCAAAAGTGGTTATTGAACTGCTTTTATCGGTCTCGGG
Seq A exon
GTAAGTGTTTGTGTTTAGCATAACAAATCAATGTTTGAAAGAACCATTTACAATCCTCATTAAAACTGGTGTTTTTTAATTTGACAG
Seq C2 exon
AGTTGCTAAACCTTCCCAGGTGTATTTTGGAGGTACAGTTGTTGGCGAGCAAGCTATGAAATCTGAAGATGAAGTGGGAAGTTTAATAGAGTATGAATTCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409:ENST00000264107:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.008 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(5.5=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(52.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGCAATCAAGATAATTTGGCTCC
R:
ACTCTATTAAACTTCCCACTTCATCT
Band lengths:
169-256
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