HsaEX0011629 @ hg19
Exon Skipping
Gene
ENSG00000186193 | C9orf140
Description
suppressor APC domain containing 2 [Source:HGNC Symbol;Acc:28055]
Coordinates
chr9:139960714-139965040:-
Coord C1 exon
chr9:139964342-139965040
Coord A exon
chr9:139964156-139964245
Coord C2 exon
chr9:139960714-139960826
Length
90 bp
Sequences
Splice sites
3' ss Seq
GCCCGTGCATTTCCCACAAGGGA
3' ss Score
4.55
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
Exon sequences
Seq C1 exon
GCCGCGCGCCTTCCTGCAGAGCCTGCGCACCCTGTTCGACATCCTGGACGACCGGCGGCGCGGCTGCGTGCACCTGCGCGAGATCGAGTCCCGCTGGCAGGGCACCGACGCGCGGGAGCTGCCCCGCGGGGTGCTGGAGGGCTTGCGCCAGGTGGCCCCGGCCAGCGGCTACCTGACCTTCGAGCGCTTCGTGGCCGGCCTGCGCACCTCCCTGCTGAGCGCCGACGGCGGCCCCCGGGACCCCACGCGCGCCCCGGCCCGGCCCGGGGATCAGCCGCCGCCGCCGCCGCAGCGCCTGGTGTTCGCTCCGGCCGACGAGCCGCGGACGGTCCTGGAGAGGAAGCCCCTGCCCCTGGGCGTGCGCGCCCCTCTGGCCGGTCCCAGCGCCGCCGCCCGCAGCCCGGAGCAGCTGTGCGCCCCGGCTGAGGCGGCGCCCTGCCCCGCGGAGCCCGAGCGGTCCCAGAGCGCGGCGCTGGAACCGAGCTCCAGCGCGGACGCAG
Seq A exon
GGACGGGACCGGGGAGCGGCTCTTCGTGGACTCCGGATCCTGGAGGGCGCCTCGGCGGGTCTGGAGGGAAAGGGCTTCATGCTTGTCGCG
Seq C2 exon
GTGCAGTGGCGTGCAGGGCCCTGGAGGCGGACTCAGGGGATGCCCGGCGGGCTCCCCGTGCCCGAGGGGAACGTCGGAGGCACACCATCGCCAGCGGCGTGGACTGCGGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000186193-'0-1,'0-0,1-1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.723 A=0.774 C2=0.667
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF114143=Suppressor_APC=PU(4.8=10.5)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
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:
TCCTGGAGAGGAAGCCCCT
R:
CTGAGTCCGCCTCCAGGG
Band lengths:
207-297
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)