HsaINT0082873 @ hg38
Intron Retention
Gene
ENSG00000132470 | ITGB4
Description
integrin subunit beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr17:75736051-75736386:+
Coord C1 exon
chr17:75736051-75736154
Coord A exon
chr17:75736155-75736287
Coord C2 exon
chr17:75736288-75736386
Length
133 bp
Sequences
Splice sites
5' ss Seq
GGGGTAGGC
5' ss Score
5.3
3' ss Seq
GGTGCCCCCTCCTACCCCAGGGC
3' ss Score
8.2
Exon sequences
Seq C1 exon
ACCGAGGACGCTGCTCCATGGGCCAGTGTGTGTGTGAGCCTGGTTGGACAGGCCCAAGCTGTGACTGTCCCCTCAGCAATGCCACCTGCATCGACAGCAATGGG
Seq A exon
GTAGGCCTGGGCATAAGACAGACAGTGTCTGTCAGCACCACCCACCCTCTCCAGAGAGAACCCTATGGAGAGAGGAGAGGGAGCAGGCAGGGATGGGGCACAGCTGGCTCACTGGTGCCCCCTCCTACCCCAG
Seq C2 exon
GGCATCTGTAATGGACGTGGCCACTGTGAGTGTGGCCGCTGCCACTGCCACCAGCAGTCGCTCTACACGGACACCATCTGCGAGATCAACTACTCGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132470:ENST00000200181:14
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:
PF079748=EGF_2=PD(64.5=57.1)
A:
NA
C2:
NO
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:
CCGAGGACGCTGCTCCAT
R:
AGTTGATCTCGCAGATGGTGT
Band lengths:
194-327
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