HsaINT0082513 @ hg19
Intron Retention
Gene
ENSG00000091409 | ITGA6
Description
integrin, alpha 6 [Source:HGNC Symbol;Acc:6142]
Coordinates
chr2:173356153-173362828:+
Coord C1 exon
chr2:173356153-173356251
Coord A exon
chr2:173356252-173362702
Coord C2 exon
chr2:173362703-173362828
Length
6451 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CTTTCTTTTCTGCCCTGTAGGTT
3' ss Score
12.29
Exon sequences
Seq C1 exon
GAATATTCCAAACTGAACTACTTGGACATTCTCATGCGAGCCTTCATTGATGTGACTGCTGCTGCCGAAAATATCAGGCTGCCAAATGCAGGCACTCAG
Seq A exon
GTGAGAGGTTCCCCAGCTTCATTCAGGTTCAGAACATGTCTCTTTTCCCTGTACCCCACACTCATGTCCTGAAGTCATGTGCTTTGGTGCTCATTTCCCTCATAGCCCCATTACGGAGAAAACTGTCTTAAGGTACTGGCACTGCAAGCTGTATTTTAATAGAATCATTGAAAAAAAGAAGTAAATCTAGGGTCATCCAGTTCAGCAGTGCCCATGGTAGGTTTGAGAACTACTGGCTCAATTCAGAGAATGGGTGCACCTCACAGCCCTCTAGAAACCTGTGTCTTCTACCATCTCTAATGCTGCAGCCATTGGTGTAATGCCCCAGTGATGGCCCATCCCTTGGCCAGCTGTAATTATTAAAAAAGATCTCTTCATAGCTGACTCCTGAACTGAACCTTGTAAGTCCCTGGTTATGCCCCTCAAACAAGTCTAAAATAAGTTCTCTCTCTTGGCCATGTAGCAGCCTCTCAAATAATTGAAGGAAATGGTCATGCCTCCTTGGATGTTTCTTATTCTTCTCAGAGCTTATGCACCCAGCTCTTGAGTTATGCGTCACATTGGGCACAGCTGAACTGGCTCCTGGCCTCTCCCTTCCTGGGCAATTTGATTCCCACGTGGACAGAGCAGCTGAGGTGGGGTCTGCTTGGTCCCACTTACCCTGGGGCCTTTACCTCTCAGCATCTCGGCACCACACTTCTGTCAGACCTGCCTAAAATTTGCTTTTTCAAACCATTGCTGAGCAGCATGTTTGAATTTCTAGCAGCTGCTATTTTTGTGTTAGTGTTCTACTGAAACTTCCAGGTGTTTTCATCAGAATTTGTTGTCAAGCTGTGTTTCCAGTATCCTGTCCTTGAGCTATTTGTAAAAATCTAAATGTATGCCTTTAAGTGTATCCTTACATTTTATGTGATTTGCTTTGGGTCCATTGTTTCAGTTTGCAAAGTAATTCTGAATCTTGCTTCATCATTTGCTTTCTCAACTTTCTATCCCTGAAAGTTTTAAAAACTGAGAAGCATGTTCTCTATGTCTTCATCCAGGTAATGACAAATATGTTGAATAGGACTAGGTGTAGAACCTTGTAGTGAACCAATAGTGAGGGGTTCCCTGTGGGAGTCTAGAACCCACAGGGACTTGTATAAAGATCTCGAGGCAGAATGACTGCATGTCATGGTGGGAATAATGAATGGGAATGTTTTGCAAAAGAGACTGGAGAAAGAAATACTGTGAATTACTGTTCTTAAGTTAATCTGCCAGTCTACTTATGGAAATGTTCTGGCTTCAGTCATTTAGCTAGCTGAAAATTCAGGGAGCCTCCCTAATCATTCTGTTTTCTGAAATATAGCAGTCCTTACGATTTATTATCCAAGCAAGAATACATTTTTGTTTTTATTTAGTTTTTTGAGATGGAGTCTTGCTCTGTTACCCAGGCTGGAGTGCAGTGGCGCAAACACAGCTCACTGCAGCCTTGAATGCCTGGGCTCAAGCAATCCTCCTGTCTCACCTCCTGAGTAGCTGGGACCACAGGCATGCCACCACGCCCAGCTAATTTTTCAGTTTTTTTTGTATAGCCAGAGTCTCACCATGTTGCCCAGGCTGGTCTTTAACTCCTGGACTCAAGCAATCCGCCTGCCTCAGCCTCCCAAAATGCTGGGATTATAGGTGTGAGCCACTGCACCCAGCCCCAGGATACATTTGCCTGAGACAAATGCTGTACTGGGCAAGCTGCTGCGATAAGTGGTATCAACCAGCACTGTCCCGGTCTCTCCAGGACATATCAACAGGCATCATAAGGGACTTTCAAATAAACCACACCTTCCCTAAGGATCCTTTCTCTGCATCTATAAAGGCAGCAGGTATAGCTTTCTATAACTGTAAATCAGCAACTCTGAAAATCACTGAGATTTCAGAGCTAGACAGAGAACACTTTAGAGGGAAGGGACTAACATTAATGAAGCCTTAATAAAATGTCTGCAGCTTACTAGATACTTTATACTCTATCATTCAAACTTCAGAAGAATGCCAAGGGTAAACATTGTACTCATTTTACAAACAAGGAAGCAGACTCAGAGAGGGGATATAATTTGAGACCCTCAATTGAAACCTGTAATTGTCTGACTTCAGGGCTTCTGTTCTTTGACTCTGTGGCACTTGGTCCCCTTAAAGTCCCCAAATCTCAAATTGAGATAAGAAAACTGAATCCAAGGAAAGGTATCTCCCCGTCAGGGTCACCCGACCAGCAAGTAGAGCTGAGACCAGACCTTGGGTCTGATGTCTCCTCTTCAAGTGCTGTCTTCTTCTGGAAGATGATGGAACTCTGGGGGCCCTGGTGTCCAGTCTGATGACTGGGTCACAAATGAAAGTGAGGTTCTCTTGGGCATTTTATGTTCTTAGAGCTTGGAGAACTCATGCCTCCCAGTGGGAATTGATGTCTTCACAAATTGGTAGATTTGTGAATGGGTTACTGGTCTCATATCTAGAACCCATGTCTTTTGAAAATTGAGACATTTTCTTAACCTCTAGTCTTCTGACACCTTTTCTGTTTTCTGTGATTTCTGACATACAATAGCTCAGATGTCATATCTGCACATTTCTTGAGTAGTTTGAGCTGTAGTTTTTCTGGGCTTGAAGATCTAAGCTTAATTTGGCTTAAAAAAGCAAAAAAACTTTTTTGTTTCTTTATAACCCCACGAATTTCAAGAGTTTTGTGTTCATCTTTTAATAAAACACAGTTAAACTTTGGGAGGCCAAGGCAGGCGGATTGCTTGAGCCCAGGAGTTAGAGACCAGCCTGGGTAACATAGCAAAACCCCATCTCTACAAAAAAATACAGAAATTAGCCAGGTGGGGTGGCACATGCCTGTATTCCCAGCTACCTGGGAGGCTGAGCTGAGAGGATCACCTCAGCTCAGGAAGTCGAGGCTGCAGTGAGCCAAGAGTGTGCCACTACACTCCAGCCAGGACAACAGAGTGAGGCCCTGTCTCAAAACAAACAATAAAAAACACTTCTAAATTAGGATACTATTATAATGAAGTCAGGGAGAGCAGAAGTCACATGATTGAGCCAGGTAAGCCATGCTATATTTTAGCATCAGTTAAATTAAATCCATCTTGTTAATAAACACCCATGAAAGACACATGTATGCCTTCCCTGTGCTAAATGTTAGAGATGCAAAGTTGGGTAAGATACAGTGTCAACTGTTAAGAATGTCATGCTGTAGGAGACAGAACCAGGAAAACACTGTCAAATTAGCCAGGGAAATTGAGGGGGATTGTTTATTGGTTGTATTTATATTGTCCCCATTTATCCCTAAGGAAGCAAGTAGAGAGTATCCAAGCTTCCTGGCTGTCAAAATTTTTTTTAAAATGACCAAAAAAATGCATAATTCTTCAGGGGAATAAGATTTTCCCTTTTGGCTCTAAATTCAGAGAACAACTTAAAATTCAGAGAACAACTTAAGATACGGATCCTTTTATAAGATGGCCTGTTATATGATAAACACCAAGAGTGGATGATGTCCTTAATAGATAATTTTGTAAAAGATACGAAAATCCCTTCATTGGGTGACTTCCTGTACTGAATGAAGTTCAATGAGAACAGTGGGTGGTACATTACAGGGTAATTTAGAGAAGGTATTTTGGCAGTTGACAAGCTAATGTAGTCTCAGCACTGCTCACTGGTAATCGAATTTAATGCATCAACAGAGCTTATATCCCTCTTCCCCTTATGGGCACATGGTGGATGAGTTTCACAGGTGTGCGTCATCCCCATGGAAATAACTACATTGTAATGAAACCAAAGGTAAGAAATTATTTTTGGAGTTGTAAAGCTCTACAGTAGTTTCTACTCACCTGTTCATCAGTAACAGTTGGTGTGACAAGACAGAACAAGGCTTGGAGCTCTGGGAATCACAGCCCACCCTTTGTCTTCCATCTTTGGTCACCTGGCTCTATGGCCAGCTTCCCCTTGTTCTCAATCCCAGCTGGAGAATGACTGTCATACCAGAAACAAAAACAAAAAAAACAAAAACACCTTCAGTTGACAGTTTAAGCAAACAACCAATAAAGTCTTCCTGACTGGCCTCTCGCCCTCCAGAACCACGGAGCACATCTGCCCTTTAAATGTGTAGCCAACCCAGTCCCTGACTTTGGTTCTCAGTCTTTGATGCCCAGTGAGTTAACAATATGTGGAAGTTCTGGTTTGAATGGTGCCAGGCCTGGGGCTTAGAGCTTCAGCTGGATTCCCATCCACCCTGCCACTCCAGGCTGCAAAATCAAAAATTACTTTGCTCAGTTGTTAACAATATTGGATCCCAACCATTTATGGGGGTGGCTTTCCCCTACTGTCAGCTGTTTTAAAGACACTTGTGCACAGTGTCATTATAATAAAGCTGATTCTCCTTGCCGAAGACCAGTTTCCACTCTCCACTTCCAGATTTACTGGAACTTTTTCTTACAAATGAGGATGGCCCTTCCACATGACCATCTTGCCCTGAGGATACACTGTACACCTTCCTTGTGTTAGATAATAGGGCAACAAAGTTAAACAAGATACAGTTTAGGCTAATTGAAATCATCTATTTGGTTTGTTTCATTGTAGTCAGCTTACCAACCACGTAACTATTCTATTGCTTCACTGGTCTGTCCCTGTTTCTTCTTCCCTTCTTTGTAGATGTCCCTGTGCTGAACGCAGTAATCTCTTCCCTGTCAGGGGAGGGAAGGAGAGGGGAAGTGAGCCACGAGGCCACCTTGGGGCTCAGAGCTTGTAGAAAACCTCATTTAGAGCATAACAGGAAACATGGTGGCTGATAAAGGTGTTTTATGCCTGCCTGTTACCATCAGTATAATTGGCTAAATCTCAAGATGTGATTGCTGTCTATTGAATGTTTAAAGAAAAGCAGTTTTGCTGCTTTTAAGTATTTTTTGTAAGTCAGGTGAGGTTGAGAAACTGTTTCCTAGAAGTGGAAAGGGAAGTACTTTGATGAGAGATTTTTTTAAAGAAAAACACCACCGCATAGAAGTATTGAAGCACAGTGTAGACATAGCAGCATCCAGGGTTCAATATGGACATAGAATATTTGACTGAAAACACTTCTCAGAAGTTAAATGCTCCCCCTGAGTTTTGTTTCCCTTTACTTTACATTCTCTTAACTCAGAAATATCAGAAACTTCAAACCAGTGGATCTCTAATCAGTGTAGTTTACAAAATCATGTTCACAATAATCACCAGGTCTTTAGCATGCTTTGAAAAATAGTTCCTGGTATCACAAAAGTTCATTTGCATTCTAAACCCATGTAACTGAGTTGTTGGAATTGCCAGAAGCAGCTTTTTAGGTTTCTGAGTAAACACCATTTCTATTTAATTGATATTTGCAAACTATCCTATGTTTAGAGTTTAAGCTTCTCAGCAGCAGGAGCAACTTAAGCGCTAAGCTGCCTCTGAGTGGGTCCAGGGTCTAGTTTGTTCATATACCTTTTTGTAGAAGATGGCACCAAGCCATTTCAGGAAATGTTATTGTTTATGAGGGTCTTTAGTGTGATATCCTAAGAAAAAGGTAAAATGGTGTCCATCAGTCATGCAGCCCTATCCCTATTTTTGTATTTCACAACATCTTTAAAGTCTGAATGAGGAATGTTGGCTACTTTTGCCTAAACTGGCCCTTTTCTTTCCATTGCTGAATATTAATTAAAAGAAAGTATAGGCCAGGTGAGGTGGCTCATACTTATGATACCCACACTTTGGGAGGTCAAAGCAGGAGGATCACCTGAAGCCAGCACTTTGTGAACAACATAGACCCTGTCTCAACAAAAAAATTTTTAAAAAAATTAGCTGTGAGTGGTGGCATGCGCCTGTAGTCCCAGCTACTTGGGAGGCAGCTGAGGTGGGAGGATCACTTGAGCCTGGGAGGTTGAGGCTGCAGTGACCCATGGTCACACCACTTGCACTCCAACCTGGGCAACAGAGTGAGACCCTGTCTCCAAAAAAAAAAAAAAAAAAGTATGATTGTTCTCAAAAAGATACCAGGTTAGATAGATAGAACAGACTGGCTGTTAGATCTATTTAACTGGGTATCTTTTTGAGAGCAATTTGTTTAGATACACAGACTGGCTGTATATTGATAATTGCTGGAACAGGATGATGAATACTTAAGGGTTCATTATACAGTTTACTTGTGTTGATAACAAATTTTTTTTAAGATACATTAACAAAGAAGTAACCACTTTGTCAGAATACAACCCAGCATTTTCAAGATTCTGGGGAAAGATCTTCAAGGAATGTCTCTTGAAGCAATATTCTGTTAAGAGAAAGGATCTTGCATCAGAAAGTCATCTCATCCATTCACAGGCTGCATTGTCCAAAATATATTCAAAAGCAGAATTAGAACCATAAACTCCTGGTGTGAACTCTTGCCGCTGTATGTAGTAATGCTGCTTTCTTTTCTGCCCTGTAG
Seq C2 exon
GTTCGAGTGACTGTGTTTCCCTCAAAGACTGTAGCTCAGTATTCGGGAGTACCTTGGTGGATCATCCTAGTGGCTATTCTCGCTGGGATCTTGATGCTTGCTTTATTAGTGTTTATACTATGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409-ITGA6:NM_000210:23
Average complexity
IR-S
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:
NO
A:
NA
C2:
PF052976=Herpes_LMP1=PU(53.6=88.1),PF151761=LRR19-TM=PU(41.4=85.7),PF0035715=Integrin_alpha=PU(0.1=0.0)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)