HsaINT0082539 @ hg38
Intron Retention
Gene
ENSG00000135424 | ITGA7
Description
integrin subunit alpha 7 [Source:HGNC Symbol;Acc:HGNC:6143]
Coordinates
chr12:55687971-55688300:-
Coord C1 exon
chr12:55688202-55688300
Coord A exon
chr12:55688097-55688201
Coord C2 exon
chr12:55687971-55688096
Length
105 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
ATTGACCCCTTGCTCCCCAGATC
3' ss Score
8.62
Exon sequences
Seq C1 exon
GAGTACTCAGCTGTGAAGTCCCTGGAAGTGATTGTCCGGGCCAACATCACAGTGAAGTCCTCCATAAAGAACTTGATGCTCCGAGATGCCTCCACAGTG
Seq A exon
GTGAGCTGCAGGGTTGGGGGATAGGTGGGGAGGACTCTCTTCTTTCCTGCTCCCTCCAGTTCTTGTTCCATTGACCTCTTGCTCCATTGACCCCTTGCTCCCCAG
Seq C2 exon
ATCCCAGTGATGGTATACTTGGACCCCATGGCTGTGGTGGCAGAAGGAGTGCCCTGGTGGGTCATCCTCCTGGCTGTACTGGCTGGGCTGCTGGTGCTAGCACTGCTGGTGCTGCTCCTGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135424:ENST00000257879:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.028
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0035715=Integrin_alpha=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGCTGTGAAGTCCCTGGAA
R:
CTTCCACAGGAGCAGCACC
Band lengths:
219-324
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development