HsaINT0082929 @ hg19
Intron Retention
Gene
ENSG00000115221 | ITGB6
Description
integrin, beta 6 [Source:HGNC Symbol;Acc:6161]
Coordinates
chr2:161052727-161055769:-
Coord C1 exon
chr2:161055690-161055769
Coord A exon
chr2:161052932-161055689
Coord C2 exon
chr2:161052727-161052931
Length
2758 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
TTTTTCTTTTTCTTTTTTAGAAT
3' ss Score
13.73
Exon sequences
Seq C1 exon
GTGGCTGTGCCCTGGGAGGTGCAGAAACCTGTGAAGACTGCCTGCTTATTGGACCTCAGTGTGCCTGGTGTGCTCAGGAG
Seq A exon
GTAAAATAAATGACCTCAATGTGTTTTTAAAACCTGTCTGCAGTTAAATTCATGTTAATTTCCTCAGTGATATTTCTGATAGTGACTTGCTTTTTTGTGGAGTTGTATAAGTAAAACAAATCAGGAAAGGAGAAGGTGAGCATTGGTAGATCAAAATGGCATTCATGTGATTACTTTCAAAAACAATTTGTAGAAGGAGTGGATGTCAAATAATTCGGAAAAAAATTTTAACTTGGGATTTTTTTATTTTACCTGGTTCCTTCTTTTATTGTAAAGCCATTTCTACAGGTTACATGTAAAATATGGAGGCTGTCTGGATAATCAGAGTTCATGGAGATGATATTTTCTAAAGTTAAACATACATTTGATGTTCATATTATAGTTGTATTCCCTCTGGGTACCAGGATCCATTCTGAACTACTGCTAGATTCTAAGGGATGTGTTTTAAGTTTGGGGCAAATATTACTGGTCAGATATTATCCAGTTCCTTTAAAAATGGCATTTTCATAAACTCAGTGACTCTGTACCACACCAGTGACAAAGTGCCAAATAGGAACTCCTTATCTGGTCAAACCGAAAACTACATGAAAGCAGTATGAAGATGATTGGGGACTATGTACCAAGCCATCCTAAGACACTAGAGAATGATGTCTAACTGATTCATGGTAAGGAAGAGAGGCATTAGCTTTCTGAATTTTAAAACAAGTCTCTATGCACTGGATCTCATAAAGATAATCTAAACATAAATCAAATCATACGAATACCAAGTGCAGCAAGAGCTGAGTAGCATGCTCAAAGAGCAACAAACCTCGACACCAAACTCAGAACTGGGTTCTACCTGTGGAAACCCAAACTCCGAGTTCAGTGTGTATCCATGAAGTGTGGCCTCACAGACAAGAGAGCACAGACACAGCTCAGTCCCTTACTACGGCCTTGACCAACGCGGCCACAAAAAAAATTCAAGAGAATTATGCTTTTTTTTAGTTCCTGTATCAAAGCAGGATTGAGAATATACAAGAAGGGAAAAAATCACATGTTTTTTGGATATTGACTTCTTGAAGAAGTATTAGTTTCATGCCAGAGAGATACAACAACAAATCAGCCTAGAATTTTCATTTAAATGCATTTTTCAGCATTTACTTAAGAGAGTTTCCTAAGTTGCTGCTGATAACTTTACTTGTGTATAATACTTGGTAGCCAAATTGTTGTCAAATTGTAAAACCAAATTATTCTAAGAGGCCACTCTAATATTAGAAGTAGTTATGAGGATGCCAGTCGAGGCAGTTGGAGCAAAAAGTAAATTAGGCTTCTGCTTAGGGCAGATAGAAAATAGGTCATGTGGTTAACACCACCTCTGATCTTCTGGCAAAGGCTATGAATAGAGGTGATAGCAATGACACTGTGTTGAGAAGGATTCTGAAGCCTTGGCCAGCCACTGTTTCCCTTGGTTACATCATGGGAAGTTACAGTTTGCCATGCCTGGCCTAGAGCTTCAGACACGCACAGGCCTACTGATAGATAACAAATTGTATTCTCAAAATCAATTTCAGAAGAAATCTAACTTTCCTAGTTGATGAAAACAGCAAGAGTGGCTTGGAGTTCTAAGAGGCAAGGAAAATAGTATGAGCATTGGTTTTGTTTTCTCTAAGCATGAAAGTCAATGGGCAACAAGTTCCCCTTTGCATAGTGTCATGCCCACTCTAAAGCAGCCACGCCTATCAGGTAAGACAGGTATTTAATCTATTAGCTCCATCTCCCTGTTTTGGGTGTTTCAGAATTTGAACGGCCACATCTCTGCTGGGAAAGACTACATCTCACTGCCCCTCTGCTATCCTTGTGGGAAACTCCTGTGTCCCACGCAGAAAAGCAGACTTTTTTTTTTTGAGACGGAGTCTTGCTCTGTCGCCCAGGCTAGAGTGCAGTGGCATGATCTGGGCTCACTGCAAGCTCTGCCTCCCGGGTTCACACCGTTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGCACCAGCAAAAAGCAGACTTTTAACCCATCTTTTTCACTTTTCTTCCTCACTTTCAAATCTTGGAGAAAGTTATAAAGGATCTTGAACTAGGATACTTCAAGACTCTGGGTTTAAGTCCACAAGAGGTCAATTTAGGTGAAGTAATGCTGCAATATAAGGGTAACAGACCGATGCATACAACTGGCAGAGAGTGCTAGATGGGGGAGATGTTGCAATCCCTACCCTTTAGGAATCTGCAGAATCTCTCTTTATCACTAGATTTGGGGATTGACACCCTGGAGCCCTTGGACAGTGTGTCAATTCCCAAATCTAGTGATAAAGATTTGATCATGGAATCAAACCTACAGGTCACCCTGAGCAGATAAATTCATGGGATGATGTCAACTCTGTGAACCCAACAGTTTCAAGGATCTGGTCATGGCCTGGGACAAAGCTTTAAAGAACTGAGCTTAAGACACAGACACACACACACAGACACACACACACACATGCAATTGTTACGTGAATTCAATTGAACATAACTGAAAGGAGACTCCAGTTTTACTCAGAATTTTACCGGCAGAATTCTCTGGTTATTCACCTATAACTTAACTTTAGACCTATAATCAATGTTAGTCATGTAGGGATACAATATGGCAAGATGCTTAACTAGCAAATTGTGCAGAAAAACTTTCAATTGCTGGTATCTTATAAAGAAATTCAGATTTGTTTTCTTTTTCTGGTTATTGTTTTTCTTTTTCTTTTTTAG
Seq C2 exon
AATTTTACTCATCCATCTGGAGTTGGCGAAAGGTGTGATACCCCAGCAAACCTTTTAGCTAAAGGATGTCAATTAAACTTCATCGAAAACCCTGTCTCCCAAGTAGAAATACTTAAAAATAAGCCTCTCAGTGTAGGCAGACAGAAAAATAGTTCTGACATTGTTCAGATTGCGCCTCAAAGCTTGATCCTTAAGTTGAGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115221-ITGB6:NM_000888:2
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:
PF0143720=PSI=PU(50.0=92.6),PF0036213=Integrin_beta=PU(9.9=63.0)
A:
NA
C2:
PF0143720=PSI=PD(46.0=33.3),PF0036213=Integrin_beta=FE(39.5=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:
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)