HsaINT1016875 @ hg38
Intron Retention
Gene
ENSG00000150093 | ITGB1
Description
integrin subunit beta 1 [Source:HGNC Symbol;Acc:HGNC:6153]
Coordinates
chr10:32908368-32910455:-
Coord C1 exon
chr10:32910223-32910455
Coord A exon
chr10:32908535-32910222
Coord C2 exon
chr10:32908368-32908534
Length
1688 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
ATTACCTTCTTATTTTCCAGAGT
3' ss Score
10.2
Exon sequences
Seq C1 exon
AGAATGTGTTCAGTGCAGAGCCTTCAATAAAGGAGAAAAGAAAGACACATGCACACAGGAATGTTCCTATTTTAACATTACCAAGGTAGAAAGTCGGGACAAATTACCCCAGCCGGTCCAACCTGATCCTGTGTCCCATTGTAAGGAGAAGGATGTTGACGACTGTTGGTTCTATTTTACGTATTCAGTGAATGGGAACAACGAGGTCATGGTTCATGTTGTGGAGAATCCAG
Seq A exon
GTAGAAATGCGATGATTGCAGACATTCTTTTCATATCTTGTATGTCTTGTTTCTGCTTATTTAGGCCTAACATCCAGAAACAGCCTCCAGCTGGAATATTTTAGGTCAAGTTGGGAAATTTTTCATCTCTCAAAGCTTAAAATATTATCTAATTAACTGTATAAGAAATAAGGAAAAGAGAGTTCCACTTTTAAGTTTTCTGAGTGGAGAGTTTGAAGATTAAATACAGTGATTTATATAAGACGCTTAGTGATTTATATAAGACACTTAGAACGATGCCTGACACCAAGTGCATATTAAGAGTTTTTTGATGATTGATGATTTTAAAATTAGAGCTTGATTTAAGCTTGAATACTGGGAAAGATAATTTGTTAAAGGATATTAATATAAAGTGTTGAATTTGTTCAACTTCTCCGGAGGTGAAACTTTTTTTTTTTAATCTTAGTTTTCCTAGTAGCCTTTTTGTAGATTCTTTGGAATTTTCTACCATAGTGTACATGTTTTTGTGTGAACATAAGCTTTCATTTCTCTTGGGTAAATACTAAAAATGGCATTTTGGAGCATATGGTAAGCATATGTTTAACTTTGTTAAGAAGCTGCCAGACTCTTAGACTCCCATACTGTTTTGAATTATCAGCTAGGTGTTTTGCAAATATTGTCTCCCAGCCTGTGTCTCCTTATCATTTCATTTTTTTAAGTGTCTTCTGAACACCACAGGTTTTAATTTTGATTAAGTACAGTTTACCAAGTTTTTCTTCTGTGGCTCTTGCTTTTACATTGTCTTTAAGAACTCTGCCTAACCCAAGATTATAAGGATTTTTCTCCTCTGTTTTTTGGTAGAAGTTTTATAGTTTCTGGGGTTTCACATTTAGATCTGTAACTCATTTTGAGTTAGTGTGTGACAAAAGGCTCAGTTTTTTTCATGTCAGTGTCCACTTGTTCTAGGGGCATTTGTTGAAAAAAGACTGTCTTTTCTCCACCTTTGTTGAACATCAGGTGACCTTACATGTGTAGGCCTGTTTCTGACTCTGTATTCTGTTCCATGTATCTGAGTGTTAGCTATACCACATGGTCTTGTAGCTTTCTTTATAGCTAGGCCTGAAAGCAGGGTCTTCCAACTTTATTCTTTTACAAAAGTGTTTTTGAGACACTTCCTTAGTTCCCTGCCTTCCATGTAAATTTTAGAAGTGGCTTACTGATTGCTACAGAAGTTCTGCCAGGAGTTTGAGTGGGATACCATTGAGTTTATAGATCAAATTGGGAAGAATTGACGTCTTAACGGTATTAGGTTTTGTAACTCCTGCACATGGAATATCTCTCCATTTATTCAGTCTGAAAGATTTCTTTTTATCAGTATTTAGTAATTCTTAACATGCAAATCTTGCATATATTTTGTTAGACTTATATGTAAGTTTTTCATGCTTTTTCATTCTGTAGTAAATATTACTGTTTAAAAACTTATATTTTCAATATGTAGAAATAAATTATATATATAGAAAAATACATGATTTTTGTTCATTGATCATGTATCCTGCAACCTTGTAAACTCACTTGTTAGTTCTAAGAGCTATTTTATAGATTCTTTGGGATAGTGTGCGTTCACTCTCTTGGGTGTTTATTCCTGTATGTTTTTTATAAGACACTGCACAGCTCTTTGTGGTGCTCATTATTACCTTCTTATTTTCCAG
Seq C2 exon
AGTGTCCCACTGGTCCAGACATCATTCCAATTGTAGCTGGTGTGGTTGCTGGAATTGTTCTTATTGGCCTTGCATTACTGCTGATATGGAAGCTTTTAATGATAATTCATGACAGAAGGGAGTTTGCTAAATTTGAAAAGGAGAAAATGAATGCCAAATGGGACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000150093:ENST00000302278:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=FE(87.6=100)
A:
NA
C2:
PF079657=Integrin_B_tail=PD(6.7=10.7),PF087256=Integrin_b_cyt=PU(53.2=44.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTCAGTGCAGAGCCTTCA
R:
AGCAAACTCCCTTCTGTCATGA
Band lengths:
356-2044
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains