HsaEX0057169 @ hg19
Exon Skipping
Gene
ENSG00000137872 | SEMA6D
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D [Source:HGNC Symbol;Acc:16770]
Coordinates
chr15:48058774-48060945:+
Coord C1 exon
chr15:48058774-48058874
Coord A exon
chr15:48059234-48059290
Coord C2 exon
chr15:48060778-48060945
Length
57 bp
Sequences
Splice sites
3' ss Seq
TGTTCCTTTAATTCTTTTAGAAA
3' ss Score
8.3
5' ss Seq
CTGGTTAGT
5' ss Score
6.32
Exon sequences
Seq C1 exon
GCTGTTAACCGAAGACTTCTTTGCTTTCCATAACCACAGTGCTGAAGGATATGAACAAGACACAGAATTCGGCAACACAGCTCATCTAGGGGACTGCCATG
Seq A exon
AAATTTTGCCTACTTCAACTACACCAGATTACAAAATATTTGGCGGTCCAACATCTG
Seq C2 exon
ACATGGAGGTATCTTCATCTTCTGTTACCACAATGGCAAGTATCCCAGAAATCACACCTAAAGTGATTGATACCTGGAGACCTAAACTGACAAGCTCTCGGAAATTTGTAGTTCAAGATGATCCAAACACTTCTGATTTTACTGATCCTTTATCGGGTATCCCAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137872-'17-17,'17-16,18-17
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=0.000 C2=0.076
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(44.7=100)
A:
PF0143720=PSI=PD(5.0=15.0)
C2:
PF0143720=PSI=PD(13.6=75.0)
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGCAACACAGCTCATCTAGG
R:
CCGAGAGCTTGTCAGTTTAGGT
Band lengths:
133-190
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)