HsaINT0070407 @ hg19
Intron Retention
Gene
ENSG00000167110 | GOLGA2
Description
golgin A2 [Source:HGNC Symbol;Acc:4425]
Coordinates
chr9:131028067-131028299:-
Coord C1 exon
chr9:131028249-131028299
Coord A exon
chr9:131028161-131028248
Coord C2 exon
chr9:131028067-131028160
Length
88 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GCTTGGGTTTCCTCCCAAAGGTT
3' ss Score
7.2
Exon sequences
Seq C1 exon
GAAAAGAAAGAATGCCACCAAAAGCAGGGAGCCCTAAGGGAGCAGTTACAG
Seq A exon
GTGAGTGGAGGGTGTGAAGTTCCGTCCTGTCCTCTGGAGAATGTTTCTTTCCTTCTTTTTCAGCACTTGCTTGGGTTTCCTCCCAAAG
Seq C2 exon
GTTCACATTCAGACCATAGGGATCCTCGTATCAGAGAAAGCTGAGTTACAGACAGCCCTGGCTCACACTCAGCATGCTGCCAGGCAGAAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167110-GOLGA2:NM_004486:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.536 A=NA C2=0.430
Domain overlap (PFAM):
C1:
PF150351=Rootletin=FE(12.9=100),PF113073=DUF3109=FE(17.7=100)
A:
NA
C2:
PF150351=Rootletin=FE(23.5=100),PF113073=DUF3109=PD(30.2=90.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAAAGAAAGAATGCCACCAAAAGC
R:
CCTGGCAGCATGCTGAGTG
Band lengths:
135-223
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)