HsaINT0082539 @ hg19
Intron Retention
Gene
ENSG00000135424 | ITGA7
Description
integrin, alpha 7 [Source:HGNC Symbol;Acc:6143]
Coordinates
chr12:56081755-56082084:-
Coord C1 exon
chr12:56081986-56082084
Coord A exon
chr12:56081881-56081985
Coord C2 exon
chr12:56081755-56081880
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-ITGA7:NM_001144996:23
Average complexity
IR-S
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:
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)