HsaALTD0005719-1/3 @ hg38
Alternative 5'ss
Gene
ENSG00000165689 | SDCCAG3
Description
serologically defined colon cancer antigen 3 [Source:HGNC Symbol;Acc:HGNC:10667]
Coordinates
chr9:136407826-136410239:-
Coord C1 exon
chr9:136410090-136410239
Coord A exon
NA
Coord C2 exon
chr9:136407826-136407938
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TGTGATGTCTGTTATTTCAGATG
3' ss Score
8.09
Exon sequences
Seq C1 exon
CTCCAGCGTTCTATGAGCGCCGGTCTTGTCTCCCCCAGCTAAATTGTGAGCGCCCCCATGGCAGGGACCTGGACTCCCCCTTCTTCGGCATTCGGCCGGCCTTTATGTGCTATGTGCCCAGCCCGGTGCTGGCTTCCGTGGGAGACACAG
Seq A exon
NA
Seq C2 exon
ATGACAGATTTGAAGATCTGGAAGAGGCAAATCCATTCTCTTTTAGAGAGTTTCTGAAGACCAAGAACCTCGGCCTCTCGAAAGAGGATCCGGCCAGCAGAATTTATGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165689-1-4,2-4,3-4-1/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.211 A=NA C2=0.323
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
CTCCAGCGTTCTATGAGCG
R:
TGCATAAATTCTGCTGGCCGG
Band lengths:
260-476
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains