GgaALTA0000077-1/2 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000000252 | SCN4A
Description
sodium channel, voltage gated, type IV alpha subunit [Source:HGNC Symbol;Acc:HGNC:10591]
Coordinates
chr27:1631780-1632752:-
Coord C1 exon
chr27:1632648-1632752
Coord A exon
NA
Coord C2 exon
chr27:1631780-1631944
Length
0 bp
Sequences
Splice sites
5' ss Seq
TCGGTACGT
5' ss Score
10.06
3' ss Seq
GACCATGATGGTCGAAACAGACG
3' ss Score
2.04
Exon sequences
Seq C1 exon
TTTGGAGGCAAAGACATCTTCATGACAGAAGAGCAGAAGAAATACTATAATGCCATGAAGAAGCTCGGCTCCAAGAAACCCCAGAAGCCCATCCCCAGGCCCTCG
Seq A exon
NA
Seq C2 exon
ACGATCAAAGCGAGACCAAAACAGACATCCTCTACAAAATCAACCTGATCTTCATCGTCATCTTCACTGGAGAGTGTGTGCTAAAGATGTTTGCCTTGCGCTACTACTACTTCACCATTGGCTGGAACATCTTTGACTTTGTGGTGGTCATCCTCTCCATCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000252-27-28,27-27-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0052026=Ion_trans=PU(20.4=47.3)
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:
GGCAAAGACATCTTCATGACAGA
R:
TGGAGAGGATGACCACCACAA
Band lengths:
258-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]