HsaEX0057165 @ hg19
Exon Skipping
Gene
ENSG00000143434 | SEMA6C
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C [Source:HGNC Symbol;Acc:10740]
Coordinates
chr1:151107096-151107785:-
Coord C1 exon
chr1:151107639-151107785
Coord A exon
chr1:151107274-151107351
Coord C2 exon
chr1:151107096-151107151
Length
78 bp
Sequences
Splice sites
3' ss Seq
CACACCTCCGTTTTCCCTAGGAG
3' ss Score
10.61
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
Exon sequences
Seq C1 exon
GTGCAGTGGGAAGCGGACAGCCCAAACAGCACGACGGATCATAGGGCTGGAGCTGGACACTGAGGGTCACAGGCTTTTTGTGGCTTTTTCTGGCTGTATTGTCTACCTCCCTCTCAGCCGGTGTGCCCGGCATGGGGCCTGTCAGAG
Seq A exon
GAGCTGTTTGGCTTCTCAGGACCCATACTGTGGATGGCATAGCTCCAGGGGCTGTGTGGATATCAGGGGATCTGGTGG
Seq C2 exon
GACTGATGTGGATCAGGCTGGGAACCAGGAATCCATGGAGCATGGTGACTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143434_MULTIEX1-3/3=2-C2
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.060 A=0.104 C2=0.980
Domain overlap (PFAM):
C1:
PF0140314=Sema=PD(1.9=16.0),PF0143720=PSI=PU(14.5=18.0)
A:
PF0143720=PSI=FE(41.9=100)
C2:
PF0143720=PSI=FE(30.6=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:
CCAAACAGCACGACGGATCAT
R:
GCTCCATGGATTCCTGGTTCC
Band lengths:
167-245
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)