DreALTD0016492-1/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000034588 | scn4ab
Description
sodium channel, voltage-gated, type IV, alpha, b [Source:ZFIN;Acc:ZDB-GENE-051201-1]
Coordinates
chr3:22179306-22179631:+
Coord C1 exon
chr3:22179306-22179443
Coord A exon
NA
Coord C2 exon
chr3:22179531-22179631
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGATAAGT
5' ss Score
2.82
3' ss Seq
GTTTCTGTGTCTATACTTAGGAG
3' ss Score
7.69
Exon sequences
Seq C1 exon
ATTGAATCGCAGCCAGTATATGAGGCAAACCTCTACATGTACATTTACTTTGTCATCTTCATCATTTTCGGCTCATTCTTCACCCTCAATCTGTTCATCGGCGTAATCATTGACAATTTCAACCAACAAAAGGCAAAG
Seq A exon
NA
Seq C2 exon
GAGGAACCGATATCTTCATGACAGAAGAGCAGAAGAAATACTACAATGCCATGAAGAAACTTGGATCTAAAAAACCCCAAAAACCAATTCCAAGGCCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000034588-23-25,24-25-1/2
Average complexity
Alt5
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:
PF0052026=Ion_trans=PD(15.2=76.1)
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGCTCATTCTTCACCCTCA
R:
TCTTCTGCTCTTCTGTCATGAAGA
Band lengths:
107-111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]