HsaALTA0004397-2/4 @ hg38
Alternative 3'ss
Gene
ENSG00000150093 | ITGB1
Description
integrin subunit beta 1 [Source:HGNC Symbol;Acc:HGNC:6153]
Coordinates
chr10:32906465-32908534:-
Coord C1 exon
chr10:32908368-32908534
Coord A exon
chr10:32906513-32906562
Coord C2 exon
chr10:32906465-32906512
Length
50 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGT
5' ss Score
11.81
3' ss Seq
AGTCTCTCTCTGTCGCCCAGCCT
3' ss Score
3.2
Exon sequences
Seq C1 exon
AGTGTCCCACTGGTCCAGACATCATTCCAATTGTAGCTGGTGTGGTTGCTGGAATTGTTCTTATTGGCCTTGCATTACTGCTGATATGGAAGCTTTTAATGATAATTCATGACAGAAGGGAGTTTGCTAAATTTGAAAAGGAGAAAATGAATGCCAAATGGGACACG
Seq A exon
CCTGGAGTGCAGTGGTGTGATATCAGCTCACTGCAACCTCTGACTTCCAG
Seq C2 exon
ATTCCAGCAATTCTCCTGCCTCAGCCTCCCGAGTACCTGGGATTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000150093-77-80,77-79,77-78,77-77-2/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=PD(6.7=10.7),PF087256=Integrin_b_cyt=PU(53.2=44.6)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGGAATTGTTCTTATTGGCCT
R:
CTGAGGCAGGAGAATTGCTGG
Band lengths:
145-195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains