HsaINT0082543 @ hg19
Intron Retention
Gene
ENSG00000135424 | ITGA7
Description
integrin, alpha 7 [Source:HGNC Symbol;Acc:6143]
Coordinates
chr12:56092494-56094177:-
Coord C1 exon
chr12:56094046-56094177
Coord A exon
chr12:56092702-56094045
Coord C2 exon
chr12:56092494-56092701
Length
1344 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGG
5' ss Score
4.44
3' ss Seq
GTAAGTCACCCTTCCCCCAGGCT
3' ss Score
6.11
Exon sequences
Seq C1 exon
GCACGGCCAGGGTGGAGCTCTGTGCACAGGGCTCAGCGGACCTGGCACACCTGGACGACGGTCCCTACGAGGCGGGGGGAGAGAAGGAGCAGGACCCCCGCCTCATCCCGGTCCCTGCCAACAGCTACTTTG
Seq A exon
GTAGGGACCTCTCCCCGGCCCAGAACTGCTCTAACCCTCTGCTCCTCTCTCTTGTCCTCTCTCTCCATGCTCCCATCCTTCTGTCTCTGTTTCTGTCTCTCACCTTGTCTCTCTCTGTCTTTCTGTCTCTGGCTGTGATCTCTCTGGTCTCTTTTTCTCTCTCCACCTCTTCTTCTTCCACCATTTTCTGGCCTTTCTGTGGCTCTGTCTCCCTACTCTGTGGCCCCTACTCTGGATGTCCCCTCCCTGGTGTCTCACCCCACCCCCCACAGGGTTGCTTTTTGTGACCAACATTGATAGCTCAGACCCCGACCAGCTGGTGTATAAAACTTTGGACCCTGCTGACCGGCTCCCAGGACCAGCCGGAGACTTGGCCCTCAATAGCTACTTAGGTTTGTAAGCTCCCACCTCCTGGACTCTAGGGGCATGGCCCAGCCTCCCCTCCTTCCCCAGGGAACTCGACCTTTGGTGCCTTATAATCTCCTCCTCCCCCAACACACACCCAGGGAGACATACATTGGGCCCAAATTGCAGAGAAGAGCTGGGTCCAATGATCAGGCCTAAGAGGAGGAGGCCCCCAGGGTGGTGGCCTCTGGGGCTGTGAGCCAGGGGTCTCCATGGAGGAAGATTCAGGTGGAATGAGAGGGCCAGGGCTGAGGATATTTTGGGAAGGACAGTCCTGTCTTCTAGGGGGACTTTCCCTGAGGGGATGGATGGTGGGCACATATTGAAGAAAGGGCTAATGTTGTTGGTAAGTCCCTCTCGTTGTCTCATCTGCATTCCTCTGCAGAGGAGGAGGAAACCAGGCCTGGGAGATGTTTGGGTGAAGCAGGCGCTCTCTCACTCCCCCTTGTCTCCCCCTCATCCATGTGAAGACTTCCCCTCCCTGCCAGGATGAGGGAGTTGGGGGAAAGAGGTGCACTGGGTGGGATTCGGGCCTGAGAGGGACCTCTAGCTCTTCTAGCTCCCTGGGTGTGGGCAGGGTGAGGCCACTGTGCTCAGCCTCCTACCTGGGCTCCTGGCCTTCTCAGCCATCACCTTTCTCTCTCTTGCCCAGTCCCTGAGGCTGACCTCACTGCACTTTTTGTGCCAAGCTTGTCTCTGGGCCTGGTGGGTGTGGGAGGCTGCCAGGCCCTGTGGGGAGGAAGAGCTATCCAGCTGTGGTGCTGATGACTTGGGGGGACCTATCTTTTGGCTCTTAACCTAGGGGAGGGGGCAGGGTGCAGGGGAGCTGTGACTTGGCTCTTAACCTGTAGGGAGGGGGCAGGGGCTGGGGGAGCTGTGACACACCCCAGCTTCTGAGTCTTGGGGTGAAGACTTAGGGGTAAGTCACCCTTCCCCCAG
Seq C2 exon
GCTTCTCTATTGACTCGGGGAAAGGTCTGGTGCGTGCAGAAGAGCTGAGCTTTGTGGCTGGAGCCCCCCGCGCCAACCACAAGGGTGCTGTGGTCATCCTGCGCAAGGACAGCGCCAGTCGCCTGGTGCCCGAGGTTATGCTGTCTGGGGAGCGCCTGACCTCCGGCTTTGGCTACTCACTGGCTGTGGCTGACCTCAACAGTGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135424-ITGA7:NM_001144996:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.326 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0183918=FG-GAP=PU(33.3=18.6)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAGGGTGGAGCTCTGT
R:
CCATCACTGTTGAGGTCAGCC
Band lengths:
335-1679
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)