RnoALTA0035205-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000032473 | Scn10a
Description
sodium voltage-gated channel alpha subunit 10 [Source:RGD Symbol;Acc:3629]
Coordinates
chr8:128323650-128325888:-
Coord C1 exon
chr8:128325436-128325888
Coord A exon
chr8:128323788-128323790
Coord C2 exon
chr8:128323650-128323787
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GACGGGCCCTCTCTCATCAGCAG
3' ss Score
6.06
Exon sequences
Seq C1 exon
GTGCTCAACCTTTTCATCGCTTTACTGCTGAACTCCTTCAGCGCGGACAACCTCACGGCTCCAGAGGATGACGGGGAGGTGAACAACTTGCAGTTAGCACTGGCCAGGATCCAGGTACTTGGCCATCGGGCCAGCAGGGCCATCGCCAGTTACATCAGCAGCCACTGCCGATTCCGCTGGCCCAAGGTGGAGACCCAGCTGGGCATGAAGCCCCCACTCACCAGCTCAGAGGCCAAGAACCACATTGCCACTGATGCTGTCAGTGCTGCAGTGGGGAACCTGACAAAGCCAGCTCTCAGTAGCCCCAAGGAGAACCACGGGGACTTCATCACTGATCCCAACGTGTGGGTCTCTGTGCCCATTGCTGAGGGGGAATCTGACCTCGACGAGCTCGAGGAAGATATGGAGCAGGCTTCGCAGAGCTCCTGGCAGGAAGAGGACCCCAAGGGACAG
Seq A exon
CAG
Seq C2 exon
GAGCAGTTGCCACAAGTCCAAAAGTGTGAAAACCACCAGGCAGCCAGAAGCCCAGCCTCCATGATGTCCTCTGAGGACCTGGCTCCATACCTGGGTGAGAGCTGGAAGAGGAAGGATAGCCCTCAGGTCCCTGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032473-21-21,21-20-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.450 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.2=5.3),PF065128=Na_trans_assoc=PU(48.7=84.1)
A:
NA
C2:
PF065128=Na_trans_assoc=FE(17.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAATCTGACCTCGACGAGCT
R:
TTTGGACTTGTGGCAACTGCT
Band lengths:
104-107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]