HsaINT0082529 @ hg19
Intron Retention
Gene
ENSG00000135424 | ITGA7
Description
integrin, alpha 7 [Source:HGNC Symbol;Acc:6143]
Coordinates
chr12:56088562-56089421:-
Coord C1 exon
chr12:56089306-56089421
Coord A exon
chr12:56088755-56089305
Coord C2 exon
chr12:56088562-56088754
Length
551 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGG
5' ss Score
5.25
3' ss Seq
AGTGGGGTCTGACTCTCCAGGGA
3' ss Score
5.33
Exon sequences
Seq C1 exon
ATCCACTTCCTGAAGCAAGGCTGTGGTGAAGACAAGATCTGCCAGAGCAATCTGCAGCTGGTCCGCGCCCGCTTCTGTACCCGGGTCAGCGACACGGAATTCCAACCTCTGCCCAT
Seq A exon
GTGAGGGGGGCAGAGAGCAGGGTGGGGGTGGGAGGGCAAGAGTTCAAGGATTGAGAGAAAGCCCTCTCAGGAGGACCAGTCAGAGGGAAGGGCTGAGCCTGCAGAAAAGGCAGAAGGTGGAAGAGGACCTGCCGATGGACTTGGAGACTGAGATGAGGGTCAGTGATGGGGCCACGGGGGCTCCCATGGCAAGGAATAGCAATCCTTCACAGTACACTAATAATATGCAGTCTACATACATCTCATTGGTTAGTCTTCAAACCTCTGTGAGGTAGGAATTATATTAGTCTCATTTTATAGATGGAGAACTGAAGCCTAGAGAGGTTAAGTTACTTGGCCAAGGTAAGTAATGGTGGAGCTGAGATGAGAACGGAGGTCCCCTGACTCCCAGTCGTGTGTACAGAGGCCTGAGGCTTGGACGGGTGTGATGGGGACCTGGGGTGGGAAGAGAGGCTCAGGGAGTGAAGGCAGGTACTGGGGGAGCAGACTGGGCGGGGGAATGGTAGGGGGAGGTGTTCAGAACTTAGCAGGAGTGGGGTCTGACTCTCCAG
Seq C2 exon
GGATGTGGATGGAACAACAGCCCTGTTTGCACTGAGTGGGCAGCCAGTCATTGGCCTGGAGCTGATGGTCACCAACCTGCCATCGGACCCAGCCCAGCCCCAGGCTGATGGGGATGATGCCCATGAAGCCCAGCTCCTGGTCATGCTTCCTGACTCACTGCACTACTCAGGGGTCCGGGCCCTGGACCCTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135424-ITGA7:NM_001144996:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.088 A=NA C2=0.275
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(38.8=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(13.0=100)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCACTTCCTGAAGCAAGGC
R:
CCCGGACCCCTGAGTAGTG
Band lengths:
295-846
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
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)