RnoALTA0035643-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000004812 | Sema6d
Description
semaphorin 6D [Source:RGD Symbol;Acc:1310910]
Coordinates
chr3:116950078-116950608:+
Coord C1 exon
chr3:116950078-116950155
Coord A exon
chr3:116950508-116950546
Coord C2 exon
chr3:116950547-116950608
Length
39 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
TCCCTTGTGTCCCTATGAAGGCT
3' ss Score
7.48
Exon sequences
Seq C1 exon
GTCTTGCATTGCATCACGAGACCCGTACTGTGGTTGGTTAAGCCAGGGAGTGTGTGAGAGAGTGACCTTAGGGATGCT
Seq A exon
GCTGTTAACCGAAGACTTCTTTGCTTTCCATAACCACAG
Seq C2 exon
TGCTGGAGGATATGAGCAGGACACCGAGTATGGCAACACGGCCCACCTAGGGGACTGCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004812-32-29,32-28-2/2
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=0.026
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(34.2=100)
A:
NA
C2:
PF0143720=PSI=FE(31.8=100)
Other Inclusion Isoforms:
NA
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:
TTGCATTGCATCACGAGACCC
R:
GTTGCCATACTCGGTGTCCTG
Band lengths:
112-151
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]