HsaALTD0002336-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000130713 | EXOSC2
Description
exosome component 2 [Source:HGNC Symbol;Acc:17097]
Coordinates
chr9:133570879-133573014:+
Coord C1 exon
chr9:133570879-133570980
Coord A exon
chr9:133570981-133570993
Coord C2 exon
chr9:133572969-133573014
Length
13 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
CCTTGTGTTTTGTCTTTCAGATA
3' ss Score
12.95
Exon sequences
Seq C1 exon
GGGCCATGGAACGTATATGGGAGAAGAGAAGCTCATTGCATCTGTTGCTGGCTCTGTGGAGAGAGTAAACAAGTTGATCTGTGTGAAAGCTTTGAAAACCAG
Seq A exon
GTGAGAACAAAAG
Seq C2 exon
ATACATTGGTGAAGTAGGAGACATCGTAGTGGGACGAATCACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130713-1-1,2-1-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF143821=ECR1_N=PD(59.0=65.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCTGTTGCTGGCTCTGTGG
R:
TCGTCCCACTACGATGTCTCC
Band lengths:
101-114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)