HsaALTA0007598-1/2 @ hg19
Alternative 3'ss
Gene
ENSG00000196189 | SEMA4A
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A [Source:HGNC Symbol;Acc:10729]
Coordinates
chr1:156128179-156128615:+
Coord C1 exon
chr1:156128179-156128277
Coord A exon
NA
Coord C2 exon
chr1:156128510-156128615
Length
0 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
CAGCCTCTCTCCCCATTTAGGAA
3' ss Score
10.79
Exon sequences
Seq C1 exon
ACACAGTGTTTCAACTTCATCCGTGTCCTGGTTTCTTACAATGTCACCCATCTCTACACCTGCGGCACCTTCGCCTTCAGCCCTGCTTGTACCTTCATT
Seq A exon
NA
Seq C2 exon
GAACTTCAAGATTCCTACCTGTTGCCCATCTCGGAGGACAAGGTCATGGAGGGAAAAGGCCAAAGCCCCTTTGACCCCGCTCACAAGCATACGGCTGTCTTGGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196189-12-18,12-17-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.102
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(14.6=100)
A:
NA
C2:
PF0140314=Sema=PD(10.6=19.4),PF0140314=Sema=FE(30.2=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACTTCATCCGTGTCCTGGT
R:
TCCCTCCATGACCTTGTCCTC
Band lengths:
142-189
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)