HsaINT0082516 @ hg38
Intron Retention
Gene
ENSG00000091409 | ITGA6
Description
integrin subunit alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:172467481-172469380:+
Coord C1 exon
chr2:172467481-172467560
Coord A exon
chr2:172467561-172469124
Coord C2 exon
chr2:172469125-172469380
Length
1564 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
TTTCTTCCATCTGCTTGCAGACA
3' ss Score
11.06
Exon sequences
Seq C1 exon
CTGACCCCACGTCAGAAAGCAAGGAAGATCAGTGGATGGGGGTCACCGTCCAGAGCCAAGGTCCAGGGGGCAAGGTCGTG
Seq A exon
GTAAGTGTAGAGACACATGTTCATCCTATACTGTTGGACTGCTGGTTATGTGCCAGCACCAGGCTTACAGCAGGGGACAGCAGGGAGCATACATTCTAGCGAACTTACTGCTTTAAAGCAGGAATGGATGTCAAAAAGAAATCAGACTGGGCGTGGTGGCTCATGCCTGTAATCTCAATACTTTGTGAGGCCAAGGCGGGCGGATCACCTGAGGTCAGGGGTTTGAGACCAGCCTGACCAATATGATGAAACCCCATCTCTACTAAAAATACAAAAATTAGCTGGGCGTAGTGGCATGCGCCTGTAATCCCAGCTACTTGGGAGACTGAGACAGGAGAATCGCTTGAACCTGGGAGGTGGAGGTTGCAAGAGCAAAACTCCATCTCAAAAAAAAGAAAAAAAAAGAAGAAGTAATCACGTAATCAAAGCCTTATTTCTCCTGTGATTCCTGATATACTTAGAAGCAATCACACAACCTACTTTTCTTTAGAACTTTCAGATTTAAATAACTTATTAAAGAACCTTTACTAAATATTCCTACAACTCTAGATGGTATTAAAAACAAAACAAAACTAGACATCATTTCTGTCCTTGGAATTTTATAGCTTTATAGATAAGTTAGTAAAAATATGGGCATGGTCTTAGAAAGTAATAACCAGGTAGTTTTAACCTCTTGTTATTTATTCTGAGTTTTTTCAAATAGAAGGGATAGCAAAGAAAAGAGGGTTTGTTAGGTGGATTGGGCTAGATGGTCATGGTAAGGCCTTCCTGGTTGGAATATGATCTTTTTGTCTCCTTCAAAATCTGGTTGCTGTAACGAAATTTATACAGAATTTTGAGAAAAAAAATTTAGTGAACATTGAGTTTTGATATTTAAGGAATGACATTTATGGAAAATTGATTTGATACTGTATTTTTAGGCTGTGTTTACATGGAGGTTAGCCATTCATACCCTGTAGAAATTATAGAGATTATTTCTGTCTCTTCTGGCCTTGTAATTCTCTCTGCCTTTTAAAAGTAGGCATATTTTGGGAAATAATCTCAGAGCTCAGGGTGTAAGTTAGGACTGATTACAAGGAAATAGTGTGGGGAAAAGGAAATGTCTTTGTTTTAGCTGTGTTTGTTTGATCCCTATGAAAACAGGTCCATGATTTCTCTCCTCTAGAACATAATTACCCACTTTCACACTGATGTTCTGAAGGTTTATACAGCCACTAAAAGCCAATTTGAATTAAGAAAATGAAATAAGGTGTTTCTCTTTGTTTATGTGACAGGTAAATTTACAAATAAATTGCCTATGGATACAGATTGTCATTCAATTTTGGATTGGAGGATTATTCTGAGTGAGAATAAGGCACATTCTAGTTTCTATATGTCTTCATAATGGTCTCCTTAGTGCCACTTTGGGGAATATTTGCTGGTCTGGGATCCGGTCCCAAGATGAGGACATGCTTAATCATCCTCTTTAGAATTAACCTCTGTATTGACCATTTTATTCATATGTAATTTTTTAAAAACAAGGTTTATAGACAAGAATGGGCTACTTTCTTCCATCTGCTTGCAG
Seq C2 exon
ACATGTGCTCACCGATATGAAAAAAGGCAGCATGTTAATACGAAGCAGGAATCCCGAGACATCTTTGGGCGGTGTTATGTCCTGAGTCAGAATCTCAGGATTGAAGACGATATGGATGGGGGAGATTGGAGCTTTTGTGATGGGCGATTGAGAGGCCATGAGAAATTTGGCTCTTGCCAGCAAGGTGTAGCAGCTACTTTTACTAAAGACTTTCATTACATTGTATTTGGAGCCCCGGGTACTTATAACTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409:ENST00000264107:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.526 A=NA C2=0.001
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GACCCCACGTCAGAAAGCAAG
R:
CTTTCCAGTTATAAGTACCCGGGG
Band lengths:
334-1898
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development