HsaALTA0001378-2/3 @ hg19
Alternative 3'ss
Gene
ENSG00000198917 | C9orf114
Description
chromosome 9 open reading frame 114 [Source:HGNC Symbol;Acc:26933]
Coordinates
chr9:131591056-131591434:-
Coord C1 exon
chr9:131591389-131591434
Coord A exon
chr9:131591138-131591139
Coord C2 exon
chr9:131591056-131591137
Length
2 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TAGGATGTTCTTTTATCCAGAGA
3' ss Score
4.44
Exon sequences
Seq C1 exon
GGTGAACACGGCCAAAGGATTGAGTGGCGAAAATGGAAGCAACAGA
Seq A exon
AG
Seq C2 exon
AAAGAGGAGAAAAAAAAATGGAAGGATCTCAAGCTGATGAAAAAACTGGAGCGGCAGCGGGCACAGGAGGAACAGGCAAAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198917-1-3,1-2,1-1-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.750 A=NA C2=0.674
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGTGGCGAAAATGGAAGCA
R:
CTTTGCCTGTTCCTCCTGTGC
Band lengths:
107-109
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)