HsaINT0082800 @ hg38
Intron Retention
Gene
ENSG00000150093 | ITGB1
Description
integrin subunit beta 1 [Source:HGNC Symbol;Acc:HGNC:6153]
Coordinates
chr10:32922257-32922735:-
Coord C1 exon
chr10:32922640-32922735
Coord A exon
chr10:32922347-32922639
Coord C2 exon
chr10:32922257-32922346
Length
293 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
GTTTTATCTTTTAATTGCAGGAG
3' ss Score
8.74
Exon sequences
Seq C1 exon
GATTATCCTTCTATTGCTCACCTTGTCCAGAAACTGAGTGAAAATAATATTCAGACAATTTTTGCAGTTACTGAAGAATTTCAGCCTGTTTACAAG
Seq A exon
GTAAATGTGTGAGATAAAAAGAACAAGATTCTAAACATTTTTGATTGTTAGAGGCAAATCATGTCTGAATTGAAATGTGGGAAAATGCCACCAGATAGGCAAACCGAATTTTACAAAAGTGGTTTATATTAATTTTTAATCACATATTATAAAACTGGTTTCTAGGTTTGACTCCTAAAGTTAGTTAGGAGGAAACATGGGAACTGGCATTTAAAGATAAAAGTTGCTCAGTGGATCCTAATTGGTTGAATGAATAGCAGTTGTATTTTACGTGTTTTATCTTTTAATTGCAG
Seq C2 exon
GAGCTGAAAAACTTGATCCCTAAGTCAGCAGTAGGAACATTATCTGCAAATTCTAGCAATGTAATTCAGTTGATCATTGATGCATACAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000150093:ENST00000302278:8
Average complexity
IR
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:
PF0036213=Integrin_beta=FE(7.2=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(6.7=100)
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:
CCTTCTATTGCTCACCTTGTCCA
R:
ATTGTATGCATCAATGATCAACTGA
Band lengths:
180-473
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