DreEX6020628 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10018388-10022106:-
Coord C1 exon
chr6:10021984-10022106
Coord A exon
chr6:10018521-10018802
Coord C2 exon
chr6:10018388-10018441
Length
282 bp
Sequences
Splice sites
3' ss Seq
TTGCGTTTCTGTTTTTGTAGGTG
3' ss Score
9.63
5' ss Seq
GTGGTAAAT
5' ss Score
5.18
Exon sequences
Seq C1 exon
GTGTCGTTGGTGAGTCTGGTTGCAAATGCTCTTGGTTATTCTGAACTAAGTGCCATTAAGTCCTTGAGAACACTGCGTGCTCTTAGACCTTTGAGAGCATTGTCACGCTTTGAGGGAATGAGG
Seq A exon
GTGGTAGTGAACGCTCTTCTTGGAGCCATACCTTCCATCATGAATGTGTTGCTGGTGTGCTTGATCTTCTGGCTGATCTTCAGCATCATGGGGGTGAACCTCTTTGCCGGGAAATATTACTATTGCGTTAATATCACCAACGACGAGCTGTTTCCCGTCAGTGTGGTCAACAATAAGTCTGATTGCTATGCTCTGATTCAAAACAATGATACAGCGCGCTGGAAAAACGTGAAGATTAATTTCGATAATGTGGGAGCCGGATACCTGGCACTTCTGCAAGTG
Seq C2 exon
GCCACATTTAAAGGATGGATGGACATCATGTACGCAGCTGTAGATTCTCGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'28-30,'28-29,30-30=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:
PF0052026=Ion_trans=FE(17.5=100)
A:
PF0052026=Ion_trans=FE(40.6=100)
C2:
PF0052026=Ion_trans=FE(7.4=100)
Main Skipping Isoform:
ENSDART00000151247fB5414
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTCGTTGGTGAGTCTGGTT
R:
CACGAGAATCTACAGCTGCGT
Band lengths:
175-457
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]