HsaEX0057170 @ hg19
Exon Skipping
Gene
ENSG00000137872 | SEMA6D
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D [Source:HGNC Symbol;Acc:16770]
Coordinates
chr15:48059234-48066418:+
Coord C1 exon
chr15:48059234-48059290
Coord A exon
chr15:48060778-48060945
Coord C2 exon
chr15:48062694-48066418
Length
168 bp
Sequences
Splice sites
3' ss Seq
AAATCTGTTTGCCACCACAGACA
3' ss Score
5.36
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
AAATTTTGCCTACTTCAACTACACCAGATTACAAAATATTTGGCGGTCCAACATCTG
Seq A exon
ACATGGAGGTATCTTCATCTTCTGTTACCACAATGGCAAGTATCCCAGAAATCACACCTAAAGTGATTGATACCTGGAGACCTAAACTGACAAGCTCTCGGAAATTTGTAGTTCAAGATGATCCAAACACTTCTGATTTTACTGATCCTTTATCGGGTATCCCAAAGG
Seq C2 exon
GTGTACGATGGGAAGTCCAGTCTGGAGAGTCCAACCAGATGGTCCACATGAATGTCCTCATCACCTGTGTCTTTGCTGCTTTTGTTTTGGGGGCATTCATTGCAGGTGTGGCAGTATACTGCTATCGAGACATGTTTGTTCGGAAAAACAGAAAGATCCATAAAGATGCAGAGTCCGCCCAGTCATGCACAGACTCCAGTGGAAGTTTTGCCAAACTGAATGGTCTCTTTGACAGCCCTGTCAAGGAATACCAACAGAATATTGATTCTCCTAAACTGTATAGTAACCTGCTAACCAGTCGGAAAGAGCTACCACCCAATGGAGATACTAAATCCATGGTAATGGACCATCGAGGGCAACCTCCAGAGTTGGCTGCTCTTCCTACTCCTGAGTCTACACCCGTGCTTCACCAGAAGACCCTGCAGGCCATGAAGAGCCACTCAGAAAAGGCCCATGGCCATGGAGCTTCAAGGAAAGAAACCCCTCAGTTTTTTCCGTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137872-'18-18,'18-17,21-18
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.076 C2=0.790
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(5.0=15.0)
A:
PF0143720=PSI=PD(13.6=15.8)
C2:
PF0143720=PSI=PD(13.6=2.1)
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCTACTTCAACTACACCAGA
R:
CCACTGGAGTCTGTGCATGAC
Band lengths:
253-421
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)