HsaEX0057161 @ hg19
Exon Skipping
Gene
ENSG00000143434 | SEMA6C
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C [Source:HGNC Symbol;Acc:10740]
Coordinates
chr1:151108487-151109550:-
Coord C1 exon
chr1:151109333-151109550
Coord A exon
chr1:151108924-151109055
Coord C2 exon
chr1:151108487-151108639
Length
132 bp
Sequences
Splice sites
3' ss Seq
ATCTTTTCTGGCTCCTCCAGCAT
3' ss Score
8.14
5' ss Seq
CAGGTACCC
5' ss Score
8.63
Exon sequences
Seq C1 exon
GTGCAGTTCTCCCGCGTAGCCCGAGTATGTAAACGTGACATGGGCGGCTCGCCTCGGGCCTTGGACCGCCACTGGACATCCTTCCTGAAGCTTCGGCTCAACTGCTCTGTCCCTGGGGACTCTACTTTCTATTTTGATGTTTTACAGGCCTTGACTGGGCCTGTGAACCTGCATGGCCGCTCTGCTCTCTTTGGGGTCTTCACCACCCAGACCAATAG
Seq A exon
CATCCCTGGCTCTGCCGTCTGCGCCTTCTACCTGGATGAGATTGAGCGTGGGTTTGAGGGCAAGTTCAAGGAGCAGAGGAGTCTGGATGGGGCCTGGACTCCTGTGTCTGAGGACAGAGTTCCCTCACCCAG
Seq C2 exon
GCCAGGATCCTGTGCAGGAGTAGGGGGAGCTGCCTTGTTCTCCTCTTCCCGAGACCTCCCTGATGATGTCCTGACCTTCATCAAGGCTCACCCGCTGCTGGACCCCGCTGTACCACCTGTCACCCATCAGCCTCTACTCACTCTCACTAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143434_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.308 C2=0.066
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(17.0=100)
A:
PF0140314=Sema=FE(10.4=100)
C2:
PF0140314=Sema=FE(12.1=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTAAACGTGACATGGGCGG
R:
GGTCTCGGGAAGAGGAGAACA
Band lengths:
248-380
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)