HsaEX0057162 @ hg19
Exon Skipping
Gene
ENSG00000143434 | SEMA6C
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C [Source:HGNC Symbol;Acc:10740]
Coordinates
chr1:151112452-151116910:-
Coord C1 exon
chr1:151116861-151116910
Coord A exon
chr1:151114980-151115151
Coord C2 exon
chr1:151112452-151112566
Length
172 bp
Sequences
Splice sites
3' ss Seq
TTCCCTGTCTCCCCTTTCAGGGC
3' ss Score
14.37
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GTCAGAGGTTTCCTATCCCCCTCAAGCCCCCACAGGAGTCACCAACCCAG
Seq A exon
GGCCGGCTTATGGGTGAGGGGGCACCCCCTGGGGCCTGAGCTGCCCCGCACAGGATGCCCCGTGCCCCCCACTTCATGCCCTTGCTGCTACTGCTGCTGCTGCTCTCACTTCCCCATACTCAGGCCGCCTTTCCCCAGGACCCCCTCCCTCTGTTGATCTCTGACCTTCAAG
Seq C2 exon
GTACTTCCCCATTATCCTGGTTTCGGGGCCTGGAGGATGATGCTGTGGCTGCAGAACTTGGGCTGGACTTTCAGAGATTCCTGACCTTGAACCGGACCTTGCTAGTGGCTGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143434_CASSETTE3
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0140314=Sema=PU(11.7=35.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCAGAGGTTTCCTATCCCCCT
R:
CTAGCAAGGTCCGGTTCAAGG
Band lengths:
155-327
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)