HsaEX0056718 @ hg19
Exon Skipping
Gene
ENSG00000165689 | SDCCAG3
Description
serologically defined colon cancer antigen 3 [Source:HGNC Symbol;Acc:10667]
Coordinates
chr9:139302278-139304691:-
Coord C1 exon
chr9:139304542-139304691
Coord A exon
chr9:139303451-139303519
Coord C2 exon
chr9:139302278-139302390
Length
69 bp
Sequences
Splice sites
3' ss Seq
GTGACATTGTTTCTTTGCAGATT
3' ss Score
10.64
5' ss Seq
GAGGTAGAG
5' ss Score
4.86
Exon sequences
Seq C1 exon
CTCCAGCGTTCTATGAGCGCCGGTCTTGTCTCCCCCAGCTAAATTGTGAGCGCCCCCATGGCAGGGACCTGGACTCCCCCTTCTTCGGCATTCGGCCGGCCTTTATGTGCTATGTGCCCAGCCCGGTGCTGGCTTCCGTGGGAGACACAG
Seq A exon
ATTTTGGCTATGGAAAGGGGAAATGTTCTAAGCAGAGCCCGTCAGGAGCCCACGGGACACATTTTGGAG
Seq C2 exon
ATGACAGATTTGAAGATCTGGAAGAGGCAAATCCATTCTCTTTTAGAGAGTTTCTGAAGACCAAGAACCTCGGCCTCTCGAAAGAGGATCCGGCCAGCAGAATTTATGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165689-'1-5,'1-3,3-5
Average complexity
C2
Mappability confidence:
100%=67=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=0.778 C2=0.318
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
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:
GACCTGGACTCCCCCTTCTTC
R:
TTTCGAGAGGCCGAGGTTCTT
Band lengths:
168-237
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)