HsaINT0082514 @ hg19
Intron Retention
Gene
ENSG00000091409 | ITGA6
Description
integrin, alpha 6 [Source:HGNC Symbol;Acc:6142]
Coordinates
chr2:173362703-173366629:+
Coord C1 exon
chr2:173362703-173362828
Coord A exon
chr2:173362829-173366499
Coord C2 exon
chr2:173366500-173366629
Length
3671 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
AATACCTTGCTTCCTTGTAGTGT
3' ss Score
7.39
Exon sequences
Seq C1 exon
GTTCGAGTGACTGTGTTTCCCTCAAAGACTGTAGCTCAGTATTCGGGAGTACCTTGGTGGATCATCCTAGTGGCTATTCTCGCTGGGATCTTGATGCTTGCTTTATTAGTGTTTATACTATGGAAG
Seq A exon
GTAAGTCATATCTGGCATTTGAATTTCATAACAAACTTTATTTCATGTTTTAAAAAATGGGAATCAGCACTGATAGTACGTTTTCTTTTTCATTGCTTCCTTTTTTCTAACATTATGAAACTCTTTTGACATAGCAAATTTGAGGAAAATTTTACCATGAACACCTGTATATTTACCGAATATTTTGTATTTAAAGTATATTATTTGTACACAATAAGTTTCTTCATTTGTCTCTCACACATAATTTAGCATGTTTAGCAAATAACAAATTTAGATTTTATTACTTTAGCATTTTCTTCACCTAAGATATAAGTCTGGATCTAAGCCAAATTGTTAGGGTGTAGTAATAATCTGAATGTGTATCCCTGCTAATTTCAGTTTCTGTGAAGAATGTTCATAGCAGCCATTGGTGTTGGTTATGCTTACAGCTAGATTTGGAATAGAAGAGTATGACATGAATGAATAACTCTATCTCAAGGGGGTCACTATAGCGTGTATCAAACATAAGGAAGGTCTAGGTTCAATATGATGTTCCTCATTAGAATTTGGCCCTTTGACTGTAAATAAAATGTAATATCTTCCCCTGATTCTACCAGTAAAGAGTCTACATTATGAAAAACTGCGTATGAGATGGATACAAACTCTTATTGCCCAAAGATTACAACCTAAAAATTTTAGATTATTCCCAGTGAGTGATAGAGGCTTACAGTCCCTTATCTGCCATTCCAAAAAGCTCTGAAACCTTGAAGTATATATAATGACTTATTTGGCAATAAAACCTGACGTGATGTGAAGAGAGGCTACTTCGAAGTCTTTATCCTTTATGATTAATTTCACTGCAGAAATACTAACATTTTGATTATAGTAGCATTAGGTATGCAGTGCATTACTCATTTTAAAGGACAAAAATTTTGGATTCTCAAACATGTCCGGTCTGGAGGGTTCTGTATGAACCATCAACCCCCTAGGATCAGACTATCCTTTTCTTTTCATTGGATCCAAAAATATAATACATAAGGGTTCAAGATAGTCTTACTTGCAAATATTGAGCATCTGTTTTTGCTTTATTTTTTTTGACTGACTTTTGCAAATTTGAGATAATTTTCTGATGTCTTCTAGACATGGGATTGAAGCTCATGACAAAACTCCTCCTGGTATGGAGTTTTAGCCAGTTTTACCTCTAATGTTTACCTCGGGCAGTAGGTTCCTCTGGCACACACAGCCAGTCAATATAAAACATTTTTTCAAGGAGATGCCTTGAAGAAAAAAAAATTTTTTTTGAGACTGGGTCTCTCGCTCTGTCACCCAGGCTGGATTGCAGTGGTGTGATCATGGCTCACTGCAGCCTTGACCTCCTGGGCTCAAGCAATCCTCCCACCTCGGCCTCCTGAGTAGCTGGGACTACGTGCCACCACATCTAGCTAGTTTTTAAATTTTTTTTCATAAAGGTGAGGCCTTGCTGTGTTGCCCAGACTGGTCTTCAACTCCTGGGCTCAAGCAATCCTCCTGCCTTGGCCTTCCAAATTGTTGTAATTACAGATGTGAGCCATTGCACCCGGCCTTGAAAATTATTTTGATATCAAAAACTAAAGTTGGGGTTTGATATTTGAGGATGATGTTGTGTTTTCTGGAAGAGGTCATAAGGATGGTCTTTTTCAGAGCATTGGCAGCCTTTAATGAGGGTGAGACAGCAGTGGATTTAAAGTTAGAAACCTAAGCTGTATATAATCTTGGTCAAATCATTCCATCTCCCTGGGGCCTCTGTTTGCCTCGTCTGTTAAATAAGTTGATTGGATTATTAGATGATTTCATTATTTTGGGAGTTTTTGTTTTGTTTTTGTTTTTTTGAAGCTCTGAAGTGTCCAGGCTGTCAAGGGGACTCTAAAATACGACTTATACAACCCCACATGAGAAGCATTTTTATTACTTTATACTTTTATTCAACTGAATTATTTAATATGTTAAAGTCATAGGATTTTAGGGTCAGAACTACAGTTCAATGGCCCTTAAATTGGATTTTGTATATCCATGTAGAGGGCAAAGCTAAACTAGGCAGGATGAAGATCCCTACTTCAACCACAGTAGTTCAGATTGTATCCATTTTAAATATCAGGATTCTGTACAGGATTTTGTTTGCAGGTGAAAAAAAAAAAAGTCCCTTGGGCTGGTCTAAATCACCTTCATTTTGCTAACAAAGATGCTCATGACCAGGGATATTAAGAATGTTGCTGGCTGGGCGCGGTGGCTCCTGCCTGTAATCCCAGCACTTTGGGAGGCTGGTGGATTACAGCACTTTGTGGCAGGTGGATCACGACGTCAGGAGATGGAGACCATCCTGGCTAACACGGTGAAACCCCGCGTCTACTAAATATACAAAAAATTAGCTGGGCATGGTGGCGGGCACCTGTAGTCCCAGCTACTAGGGAGGCTGAGGCAGGAGAATGGTGTGAACCTGGGAGGTGGAGCTTGCAGTGAGCCAAGATCGTGCCACTGCACTCCAGCCTGGGCAACAGAGTGAGACTCTGTCTCAAAAAAAGGAAAGAATGTTGCCAAGTTGGAGGCAGGACCAGGCCTCTTGGCTCCTGGTTTATTCTTCTTCCCACCCTATTTACTAGCACATATTATTGAAAGCTGCCCAACAAAACTCTATACTGATGGAAATGTTCTGGAGCTGCAGCATCCAGTATGGTAGCCATTAGTCATGTGTGGCGGTTAGGCACGTGGAATATGGCTGGTTCACTTGAGGCACAGAGTTTTAAATGTAATTTAAATTAATTTCAATCTGAATAGCCTCACGGAGCCAGCAGCTCCCATATATTGTACAAAGTGAATCTAGGCTTTTACCTTCATGAGTTGCTGGACTAGGAATCAGAGTTTTTCAGGAGATTTTATTTGACCAGGTTAAATTTTATAAAAGACAGTTCCATGGCCTTATGAACTAGATAAAAGTAAATAGGAAAAGTTCTCTATCACTGAACGAAGGAAATTATAGTAGAAAGTGGAATTATACTTTTATACTCATTTAGAGTGACCTAACCTGAGGAGCATTGGGTCCCTACCATTTAAGGGTTTTATGGTGCTCAGAGTTTGGGAAAATGACAGCAATCATTCTTTCATGATGGTGTATTCGAATTTGTATTGTGATTCACCCCACAGATCCAAAGGCCTCAAGTAAATGGCATTTGTTCCATAAAATTTACTGTAAAAGGCAGAAAAATACCCATAGTATATCTATATTTTATTTGGATTTGTGCTTTTATTTAGAGAATTTATTTTCTAACCTTTGTCTCAATAAACTGCCGAAGTCAATCTTTTGCCTCTTTTGGAGTTCATATTCTCCTGCAGGAAGAAACTACCCAAAGCTACAATCAGCAATGTATATACGTTTTCCCTATTAGAATGATTTTTGTCCACAAGATTTCTGTTACAAAGAGAAAAATCAATGAGCTGACTAGTGTCATCCATATAAATATTTGACCAGAGATGTATGGTGAAGGGTGTATTGAATATGACAATGAAACAATGCAGTGGCTGTTCATTGTTGGTTGACTGAAAGTGGTCTGTTTGTAAACAAGCCACTAGTAGAAGGCAGATTAAAATTTGAGATGTTCTGTTGTTTGGCTCTTATACACAAAACTGTAAAATTGACTAAATACCTTGCTTCCTTGTAG
Seq C2 exon
TGTGGTTTCTTCAAGAGAAATAAGAAAGATCATTATGATGCCACATATCACAAGGCTGAGATCCATGCTCAGCCATCTGATAAAGAGAGGCTTACTTCTGATGCATAGTATTGATCTACTTCTGTAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409-ITGA6:NM_000210:24
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.114
Domain overlap (PFAM):
C1:
PF052976=Herpes_LMP1=PU(53.6=88.1),PF151761=LRR19-TM=PU(41.4=85.7),PF0035715=Integrin_alpha=PU(0.1=0.0)
A:
NA
C2:
PF151761=LRR19-TM=PD(46.4=88.9),PF0035715=Integrin_alpha=PD(86.7=36.1)
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:
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)