HsaEX0057160 @ hg19
Exon Skipping
Gene
ENSG00000143434 | SEMA6C
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C [Source:HGNC Symbol;Acc:10740]
Coordinates
chr1:151104161-151106921:-
Coord C1 exon
chr1:151106877-151106921
Coord A exon
chr1:151106436-151106531
Coord C2 exon
chr1:151104161-151105993
Length
96 bp
Sequences
Splice sites
3' ss Seq
GACCTGGTCTCTGCCACCAGTGC
3' ss Score
6.96
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
Exon sequences
Seq C1 exon
ATGGAGCTACTGGGAGTCAGTCTGGCCCTGGGGATTCTGCTTATG
Seq A exon
TGCTTCCGGGTCCTGGCCCTTCCCCTGGGACCCCCAGTCCTCCCAGTGATGCCCACCCCCGGCCCCAGTCTTCCACTCTTGGAGTTCACACTCGGG
Seq C2 exon
GCGTGCGCCGGGACCTGCCCCCAGCCTCGGCCTCCCGCTCCGTCCCCATCCCACTCCTCCTGGCCAGTGTGGCCGCAGCTTTTGCCCTGGGCGCCTCAGTCTCTGGCCTCCTGGTCTCCTGTGCTTGTCGCCGCGCCCACCGACGTCGGGGCAAGGACATCGAGACTCCGGGGCTCCCGCGCCCTCTCTCCCTCCGCAGTTTGGCCCGGCTCCACGGTGGGGGCCCAGAGCCCCCGCCGCCCTCCAAGGACGGGGACGCGGTGCAGACGCCGCAGCTCTACACCACCTTCCTGCCGCCTCCGGAGGGCGTGCCCCCGCCGGAGCTGGCCTGCCTGCCCACCCCCGAGTCCACGCCGGAGCTGCCGGTCAAGCACCTCCGCGCCGCCGGGGACCCCTGGGAGTGGAACCAGAACAGGAACAACGCCAAGGAGGGTCCGGGCCGCTCACGGGGCGGGCACGCGGCGGGCGGGCCCGCGCCCCGCGTGCTGGTGAGGCCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143434_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=0.880
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(11.3=43.8)
A:
NO
C2:
NO
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCTGGGGATTCTGCTTATG
R:
ATGTCCTTGCCCCGACGTC
Band lengths:
181-277
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)