DreEX6020619 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10047776-10053023:-
Coord C1 exon
chr6:10052817-10053023
Coord A exon
chr6:10050707-10050982
Coord C2 exon
chr6:10047776-10048117
Length
276 bp
Sequences
Splice sites
3' ss Seq
GTGCTGTGATTGGTTGGCAGGTT
3' ss Score
6.45
5' ss Seq
CAGGTGACT
5' ss Score
6.6
Exon sequences
Seq C1 exon
ACTCTGCGTGCAGCTGGAAAGCCCTATATGATCTTCTTTGTTCTTGTGATCTTCCTGGGCTCCTTCTATCTGGTTAATCTCATCCTGGCTGTGGTGGCCATGGCGTATGATGAGCAGAACCAGGCCACTATAGAGGAGGCTCAACAGAAAGAGGAAGAGTTTCAGGCCATGCTGGAGCAGTTGAAGAGACAACAGGAAGAGGCGCAG
Seq A exon
GTTGCCGCGGCAGCAGCGACAGAGAGCGGGGAGTACAGCGGAAGGGGGGGCCTGTCGGAGGAGAGCTCCTCTGGGGGGTCTAGACTGAGTTCGAAGAGTGCTAAAGAAAGGAGGAACCGCAGGAAGAAGAGAAAACAGAGAGAGGAAGAGGAGAAAGCCGACCAGGAGAAATTCCACAAGTCTGCCTCAGAGGACAGCATCAGACGGCCCGGCTTTCGCTTTTCCATTGATGCCAACCGACTCTCATATGAAAAGAAATGCTCAACTCCTAATCAG
Seq C2 exon
TCTCTTCTCAGCATTCGTGGATCTCTCTTTTCTCCACGGAGGAACAGTCGTGCAAGCCTTTTCAGTTTTCGTGGCAGAGCTCGAGACTTTGGCTCAGAGAATGATTTCGCGGACGATGAGCACAGCACATTTGAGGACAGCGACAGTCGACGAGGATCCCTCTTCGTGCCTCGTTGTGTTGAGAGGCGAAGTTCTACCGTCAGCCACTGCAGCCTCACAGCACCCAGGATTATGCTGCCAGCCAACGGGAAAATGCACTGCACAGTAGACTGCAATGGAGTGGTTTCCCTGGTTGGCGGGACATCTGTGCCAACATCACCAATTGGACGTTTGCTACCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'15-15,'15-14,16-15=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.217 A=0.674 C2=0.228
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(12.1=44.9),PF0293211=Neur_chan_memb=PU(33.7=89.9),PF0310514=SPX=PU(15.9=50.7)
A:
PF0293211=Neur_chan_memb=FE(49.5=100),PF0310514=SPX=FE(41.4=100),PF119333=DUF3451=PU(30.9=73.9)
C2:
PF0293211=Neur_chan_memb=PD(15.2=24.6),PF0310514=SPX=PD(41.4=79.8),PF119333=DUF3451=FE(51.4=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGCAGAACCAGGCCACTAT
R:
GTGGCTGACGGTAGAACTTCG
Band lengths:
304-580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]