DreEX6020626 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10021984-10025444:-
Coord C1 exon
chr6:10025290-10025444
Coord A exon
chr6:10022185-10022358
Coord C2 exon
chr6:10021984-10022106
Length
174 bp
Sequences
Splice sites
3' ss Seq
CTGTATATGTTTGTGTTCAGGCT
3' ss Score
7.78
5' ss Seq
GATGTATGT
5' ss Score
6.31
Exon sequences
Seq C1 exon
GCTGTGTGATGAGGTTTCAGTGCTGTCAGGTCGATGTGGAGAAGGGAAAATGGAAGAGTTGGTGGATTCTCAGGAAAACCTGCTTTATCATAGTAGAGCACAACTGGTTTGAGTCCTTCATCATCTTCATGATTTTACTCAGCAGCGGAGCACTG
Seq A exon
GCTTTCGAGGATATTTACATCGAGCAGCGCAAGACCATAAAGACGGTGTTGGAATATGCAGATAAAGTCTTCACATATATATTCATCCTGGAGATGCTTCTGAAGTGGGTTGCATACGGCTTCGCCAAATACTTCACTAACGCCTGGTGCTGGCTTGACTTCCTGATTGTTGAT
Seq C2 exon
GTGTCGTTGGTGAGTCTGGTTGCAAATGCTCTTGGTTATTCTGAACTAAGTGCCATTAAGTCCTTGAGAACACTGCGTGCTCTTAGACCTTTGAGAGCATTGTCACGCTTTGAGGGAATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'26-27,'26-26,27-27=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF065128=Na_trans_assoc=PD(19.1=84.6)
A:
PF0052026=Ion_trans=PU(17.0=67.2)
C2:
PF0052026=Ion_trans=FE(17.5=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGTCGATGTGGAGAAGGGA
R:
TCCCTCAAAGCGTGACAATGC
Band lengths:
246-420
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]