HsaINT1016874 @ hg38
Intron Retention
Gene
ENSG00000150093 | ITGB1
Description
integrin subunit beta 1 [Source:HGNC Symbol;Acc:HGNC:6153]
Coordinates
chr10:32910223-32911670:-
Coord C1 exon
chr10:32911448-32911670
Coord A exon
chr10:32910456-32911447
Coord C2 exon
chr10:32910223-32910455
Length
992 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGT
5' ss Score
8.07
3' ss Seq
ATTTGTGTTTTTTGTAACAGAGA
3' ss Score
8.6
Exon sequences
Seq C1 exon
GAAATGGTGTTTGCAAGTGTCGTGTGTGTGAGTGCAACCCCAACTACACTGGCAGTGCATGTGACTGTTCTTTGGATACTAGTACTTGTGAAGCCAGCAACGGACAGATCTGCAATGGCCGGGGCATCTGCGAGTGTGGTGTCTGTAAGTGTACAGATCCGAAGTTTCAAGGGCAAACGTGTGAGATGTGTCAGACCTGCCTTGGTGTCTGTGCTGAGCATAA
Seq A exon
GTAAGTATTTCCTAATTGCTTGAAATAGTTGATACTTCCTCTTGGCTCTCCTAAGCCTGTATTGTTTCTAGAACCAGAACAGTGCCAATATTAAAATATACTGTAAATAAAATGCCTGCCATGTGGAAGCCTACTCTTTAATTCTTAAAAGTTCTTTCTCAACAGCTAGTATATATTACATGGTATGAAGTGTGTCATGTGAGAGTTGTACTATTATTTTGATCTGAATGTGCTAGATAATTGAATTTACATGGTAACCTTTATTTTGGCAATTAAGATTTAATTTAATTTAATTTGTCATTACCAATTTCTTAATTACTGTCTTTTGACAAAACTAAGCCAAATTAAAGATTTTTCCTCTTGAAGGATTATTATACTAGTAACATATTATTTAAATTATTATGATTTTGGCCGAGCACAGTGGCTCACACCTGTAATCCCAGCACTTTGGAAGGCCGAGACAGGTGGATCACTTAAGGTCAGGAGTTTGAGACCAGTCTGGCCAATGTGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCAGATATGGTGGTGTGTGCCTGTAATCTCAACTACTTGGGAGGTTGAGGCTTGCTTGAACCCGAGAGGCAGAGGTTACAGTGAGCCAAGGTCACACCACTGCACTGCCTGGATGACAGAACAAGACTCCATCGCAAAAAAAAAATTATTATGATTTTATGTTACATATTTAATATGTGATAGGGCTAATTTATTTTACTATCTTTTATTTCTTAATAGGGTTTTAATTTGAACTGTAATAAATCTTTAATTTTATTATGGAAATTAGCATCTTTTTACATAATTTTTCTATCCACAAATGTAATGTTCCTCTTCATTTATTGAAATCTTCCTTCATAGCTGTTTGTTCAATTTGGTCACAAGAGTTTAGCATGGGAAATATGTTTAAGCAAATATTTACTGAAATAATAAAATGTAAATATCATAATTTGTGTTTTTTGTAACAG
Seq C2 exon
AGAATGTGTTCAGTGCAGAGCCTTCAATAAAGGAGAAAAGAAAGACACATGCACACAGGAATGTTCCTATTTTAACATTACCAAGGTAGAAAGTCGGGACAAATTACCCCAGCCGGTCCAACCTGATCCTGTGTCCCATTGTAAGGAGAAGGATGTTGACGACTGTTGGTTCTATTTTACGTATTCAGTGAATGGGAACAACGAGGTCATGGTTCATGTTGTGGAGAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000150093:ENST00000302278:13
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=0.025
Domain overlap (PFAM):
C1:
PF079748=EGF_2=PD(64.5=26.7),PF079748=EGF_2=WD(100=42.7),PF079657=Integrin_B_tail=PU(4.5=5.3)
A:
NA
C2:
PF079657=Integrin_B_tail=FE(87.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCAAGTGTCGTGTGTGTGA
R:
GGGACACAGGATCAGGTTGGA
Band lengths:
350-1342
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains