HsaINT0082502 @ hg38
Intron Retention
Gene
ENSG00000091409 | ITGA6
Description
integrin subunit alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:172485121-172487138:+
Coord C1 exon
chr2:172485121-172485264
Coord A exon
chr2:172485265-172487022
Coord C2 exon
chr2:172487023-172487138
Length
1758 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TAGTTTTCGTTTTCCTACAGGTT
3' ss Score
9.43
Exon sequences
Seq C1 exon
GATAATATCAGAGATAAACTGCGTCCCATTCCCATAACTGCCTCAGTGGAGATCCAAGAGCCAAGCTCTCGTAGGCGAGTGAATTCACTTCCAGAAGTTCTTCCAATTCTGAATTCAGATGAACCCAAGACAGCTCATATTGAT
Seq A exon
GTAAGTCTCTCTGACTTTCATTTTGCCAAAGTTTTTTTGCCATTTATGATGCTAAATCAAATGTCTTTGAAGGGAATAGAACTAGTGATTTGCTTTAAAGGCCATTCTTTTGTGTTAATATGTTTTTAATGTACGCAAAGTTAGAGAAGACTTGTTTCCCAAATTAGCAATAAACATAAAAACATGAAATACAATTTGGGGCCAGAGCGTATTTTCCTTCTTCATTTTTGGCCATTATAACCTATCGAGACTATAAATGGTAGAGCTTATATTCTAACACTGTTTCTCCTTTAGCTGTACATAGAAAGAAAAATACATTGTGTTTTACTTACCATTGAGAATACTGAAATGTAGAAAGCAGTGTGTTGCTAGTCAGAACATTAAAATCAAGGAATATCAAAATTCAGCAAAGCAAAAAAGTATTATTAGCATACAGTAGTCATTTAGTGCCTAATATAGCCTAAGTCATCTTTGGAAGAAAAATGTGTATTAGATGGCCTGTGGGATACCTCATATGAGGTGGGGTCTGTTTGCTAGGGGTTTAGGATGGTTAAGGTGCAAGGTTAGCCCGGGCAGCTATGACAGCTTGATTTGGCATTATGTTCTTGCTTTCAAAATCTAATTGATGATGAACGGGTGTGGTGGCTCATGCCTGTAATCCCAGAACTTCGGGAGGCCGAGGCGGGCAGGTCACTTGAGGTTAGGAGTTTGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTAGTGAAAATACAAAAGTTAGCGGGTATGATGGAGCATGCCTATAATCACAGCTACTCAGGAGGCTGAGGCAGGAGAATGCCTTAAACCCGGCAGGTGGAGTTGCAGTGAGCCGAGATGGCACCACTGCACTCCAGCCTGGGCAAAAAGAGTAAGACTCTATCTCCAAAAAAAAAAAAAAAAAAAAACAACTAATTGATGATGAGTGTCTGTCCACTATGGGGCTGCTGGTACTGGTGCCTTACTGAGGCAGCTTTGCAGAAGTGAGTCCTCACTGTCTCAGGAGCTGATGCTTACATCTGCATATTGTCAATCATTTTTGTCACCAAATATAGTTCCTTATATTTCTGTATACTTTTATGTACTTTTATTATTATCATGTTAATATTACTTGTGTACATTCCCAGCTCCATAGCTAGAGATGATTTTCTATTTATCGGTGTGATTATCAAGAACCCATTGGCATGGTGCTAGTATGCTGTTTGCTTACCTGACCTTAAGCTCTCTGTTTCGTCATCTCTACAATGGAGATCATAATAATAGTATCTTTTTAGAGGCCTGTTGTGAGGATTAAATGAGTTAAGATATGTAAATCGAGTATTATAATCGTTGGTATCATCATTATTATTGATACTTCTTATAGTAGCCCTATAAAGTTAGAATGGTGGTATCTCCACGTTACCTATGATGAAACTTGGACTCTGAAAGGTTAAGTGACTTGCTAGCTAAGTAAGGGGTAGAGCTGCGTTTCAAACCCAAATCTGTGTGGCTGCTGGGTCACACTCTTCTATACCACACTGCCTCCATGCCCTGGTCAAAGTGTTCTTCAAACACAATTTTACTAAAGGACAGAATGGAAATTTGATGTGTGGCAAAGTACATTTAAAGCTTGAATTCTGCATTGGTAATTGTCACACAGGGAAATGAACTGTGTGGAATAGCCAGTCACCTACATCGATGCCTTCCTGAGTCCTGAATGGTGTAAATTGACAATAGTTTTCGTTTTCCTACAG
Seq C2 exon
GTTCACTTCTTAAAAGAGGGATGTGGAGACGACAATGTATGTAACAGCAACCTTAAACTAGAATATAAATTTTGCACCCGAGAAGGAAATCAAGACAAATTTTCTTATTTACCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409:ENST00000264107:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.375 A=NA C2=0.026
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(10.3=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(8.0=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:
GATAATATCAGAGATAAACTGCGTCC
R:
AAATTTGTCTTGATTTCCTTCTCGGG
Band lengths:
246-2004
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