HsaEX0057149 @ hg19
Exon Skipping
Gene
ENSG00000092421 | SEMA6A
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A [Source:HGNC Symbol;Acc:10738]
Coordinates
chr5:115803279-115808789:-
Coord C1 exon
chr5:115808769-115808789
Coord A exon
chr5:115808581-115808631
Coord C2 exon
chr5:115803279-115803443
Length
51 bp
Sequences
Splice sites
3' ss Seq
TCCTCATCATTTTTTTATAGACA
3' ss Score
6.82
5' ss Seq
ATGGTCAGT
5' ss Score
6.57
Exon sequences
Seq C1 exon
ATTCCTTTGTGGCACTGAATG
Seq A exon
ACATTTCAACTCCTCTACCAGATAATGAAATGTCTTACAACACAGTGTATG
Seq C2 exon
GGCATTCCAGTTCCCTCTTGCCCAGCACAACCACATCAGATTCGACGGCTCAAGAGGGGTATGAGTCTAGGGGAGGAATGCTGGACTGGAAGCATCTGCTTGACTCACCTGACAGCACAGACCCTTTGGGGGCAGTGTCTTCCCATAATCACCAAGACAAGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092421-'27-31,'27-28,28-31
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.390
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(10.6=100)
A:
PF0143720=PSI=PD(3.0=11.1)
C2:
PF0143720=PSI=PD(4.5=5.4)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCCTTTGTGGCACTGAATG
R:
TCTGTGCTGTCAGGTGAGTCA
Band lengths:
142-193
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)