HsaEX0057157 @ hg19
Exon Skipping
Gene
ENSG00000143434 | SEMA6C
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C [Source:HGNC Symbol;Acc:10740]
Coordinates
chr1:151114980-151118933:-
Coord C1 exon
chr1:151118909-151118933
Coord A exon
chr1:151116861-151116910
Coord C2 exon
chr1:151114980-151115151
Length
50 bp
Sequences
Splice sites
3' ss Seq
TTTGTCCTGTCTTCCATCAGGTC
3' ss Score
12.37
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
Exon sequences
Seq C1 exon
CGATCCCGCTGACCCGAATCCTGGA
Seq A exon
GTCAGAGGTTTCCTATCCCCCTCAAGCCCCCACAGGAGTCACCAACCCAG
Seq C2 exon
GGCCGGCTTATGGGTGAGGGGGCACCCCCTGGGGCCTGAGCTGCCCCGCACAGGATGCCCCGTGCCCCCCACTTCATGCCCTTGCTGCTACTGCTGCTGCTGCTCTCACTTCCCCATACTCAGGCCGCCTTTCCCCAGGACCCCCTCCCTCTGTTGATCTCTGACCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143434-'0-3,'0-1,3-3
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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:
GATCCCGCTGACCCGAATC
R:
TATGGGGAAGTGAGAGCAGCA
Band lengths:
142-192
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)