DreEX6020618 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10050707-10053331:-
Coord C1 exon
chr6:10053190-10053331
Coord A exon
chr6:10052817-10053023
Coord C2 exon
chr6:10050707-10050982
Length
207 bp
Sequences
Splice sites
3' ss Seq
GTGCGTTGTGTCTCTTACAGACT
3' ss Score
10.39
5' ss Seq
CAGGTAGCA
5' ss Score
6.37
Exon sequences
Seq C1 exon
GCAGTGCCCTGAAGGTTTCACGTGTATAAAAGCAGGGCGTAATCCAGACTACGGCTACACAAGCTTCGACACGTTCAGCTGGGCTTTTCTCTCACTCTTCCGACTCATGACCCAAGACTTCTGGGAAAACCTCTACCAGCAG
Seq A exon
ACTCTGCGTGCAGCTGGAAAGCCCTATATGATCTTCTTTGTTCTTGTGATCTTCCTGGGCTCCTTCTATCTGGTTAATCTCATCCTGGCTGTGGTGGCCATGGCGTATGATGAGCAGAACCAGGCCACTATAGAGGAGGCTCAACAGAAAGAGGAAGAGTTTCAGGCCATGCTGGAGCAGTTGAAGAGACAACAGGAAGAGGCGCAG
Seq C2 exon
GTTGCCGCGGCAGCAGCGACAGAGAGCGGGGAGTACAGCGGAAGGGGGGGCCTGTCGGAGGAGAGCTCCTCTGGGGGGTCTAGACTGAGTTCGAAGAGTGCTAAAGAAAGGAGGAACCGCAGGAAGAAGAGAAAACAGAGAGAGGAAGAGGAGAAAGCCGACCAGGAGAAATTCCACAAGTCTGCCTCAGAGGACAGCATCAGACGGCCCGGCTTTCGCTTTTCCATTGATGCCAACCGACTCTCATATGAAAAGAAATGCTCAACTCCTAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'14-14,'14-13,15-14=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=0.217 C2=0.674
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(18.4=100)
A:
PF0052026=Ion_trans=PD(12.1=44.9),PF0293211=Neur_chan_memb=PU(33.7=89.9),PF0310514=SPX=PU(15.9=50.7)
C2:
PF0293211=Neur_chan_memb=FE(49.5=100),PF0310514=SPX=FE(41.4=100),PF119333=DUF3451=PU(30.9=73.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGGGCGTAATCCAGACTA
R:
TGTCCTCTGAGGCAGACTTGT
Band lengths:
308-515
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]