DreEX6020620 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10047542-10050982:-
Coord C1 exon
chr6:10050707-10050982
Coord A exon
chr6:10047776-10048117
Coord C2 exon
chr6:10047542-10047671
Length
342 bp
Sequences
Splice sites
3' ss Seq
GTTTTTATTTCTTTGATCAGTCT
3' ss Score
6.19
5' ss Seq
GAGGTATTT
5' ss Score
7.63
Exon sequences
Seq C1 exon
GTTGCCGCGGCAGCAGCGACAGAGAGCGGGGAGTACAGCGGAAGGGGGGGCCTGTCGGAGGAGAGCTCCTCTGGGGGGTCTAGACTGAGTTCGAAGAGTGCTAAAGAAAGGAGGAACCGCAGGAAGAAGAGAAAACAGAGAGAGGAAGAGGAGAAAGCCGACCAGGAGAAATTCCACAAGTCTGCCTCAGAGGACAGCATCAGACGGCCCGGCTTTCGCTTTTCCATTGATGCCAACCGACTCTCATATGAAAAGAAATGCTCAACTCCTAATCAG
Seq A exon
TCTCTTCTCAGCATTCGTGGATCTCTCTTTTCTCCACGGAGGAACAGTCGTGCAAGCCTTTTCAGTTTTCGTGGCAGAGCTCGAGACTTTGGCTCAGAGAATGATTTCGCGGACGATGAGCACAGCACATTTGAGGACAGCGACAGTCGACGAGGATCCCTCTTCGTGCCTCGTTGTGTTGAGAGGCGAAGTTCTACCGTCAGCCACTGCAGCCTCACAGCACCCAGGATTATGCTGCCAGCCAACGGGAAAATGCACTGCACAGTAGACTGCAATGGAGTGGTTTCCCTGGTTGGCGGGACATCTGTGCCAACATCACCAATTGGACGTTTGCTACCTGAG
Seq C2 exon
GGCACAACAACCGAGTCTGACGTCCGTAAGAAACGTTCAGGATCACACCAGCCTTCTGATTACCTCGAGGAGACAGTAGCCAGGAAAAGAGCAATGAGCGTGGCCAGCATTCTCACCAATACTATGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'16-16,'16-15,17-16=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.674 A=0.228 C2=0.455
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(49.5=100),PF0310514=SPX=FE(41.4=100),PF119333=DUF3451=PU(30.9=73.9)
A:
PF0293211=Neur_chan_memb=PD(15.2=24.6),PF0310514=SPX=PD(41.4=79.8),PF119333=DUF3451=FE(51.4=100)
C2:
PF0310514=SPX=PD(10.7=65.9),PF119333=DUF3451=PD(16.4=81.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAGAGAGCGGGGAGTACAG
R:
TTCCTGGCTACTGTCTCCTCG
Band lengths:
345-687
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]