HsaINT0082502 @ hg19
Intron Retention
Gene
ENSG00000091409 | ITGA6
Description
integrin, alpha 6 [Source:HGNC Symbol;Acc:6142]
Coordinates
chr2:173349849-173351866:+
Coord C1 exon
chr2:173349849-173349992
Coord A exon
chr2:173349993-173351750
Coord C2 exon
chr2:173351751-173351866
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-ITGA6:NM_000210:13
Average complexity
IR-S
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(9.9=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(8.0=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:
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)