GgaALTA0002477-2/2 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000004844 | SEMA6D
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D [Source:HGNC Symbol;Acc:HGNC:16770]
Coordinates
chr10:9410257-9411264:+
Coord C1 exon
chr10:9410257-9410334
Coord A exon
chr10:9411173-9411202
Coord C2 exon
chr10:9411203-9411264
Length
30 bp
Sequences
Splice sites
5' ss Seq
GCCGTAAGT
5' ss Score
10.11
3' ss Seq
ATTAATACTGTTAATTGCAGGTT
3' ss Score
6.48
Exon sequences
Seq C1 exon
GGCATGTATTGCTTCTCGGGATCCATACTGTGGCTGGTTAGACCACGAGGAGTGTGGGAGAGTGACGCCAGGCATGCC
Seq A exon
GTTCTCTTTGTTTGTTTCATACAACCACAG
Seq C2 exon
CACTGGAGGATATGTACAAGATGTAGAATATGGCAACACAGCGCAGCTTGGGGACTGCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004844-15-22,15-21-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=NA C2=0.091
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(43.3=100)
A:
NA
C2:
PF0143720=PSI=FE(35.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTTCTCGGGATCCATACTGT
R:
TGCGCTGTGTTGCCATATTCT
Band lengths:
114-144
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]