DreEX6020621 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10043179-10048117:-
Coord C1 exon
chr6:10047776-10048117
Coord A exon
chr6:10047542-10047671
Coord C2 exon
chr6:10043179-10043417
Length
130 bp
Sequences
Splice sites
3' ss Seq
CAGTCTTTTTTTTTTCGTAGGGC
3' ss Score
8.31
5' ss Seq
AAGGTGTGA
5' ss Score
4.59
Exon sequences
Seq C1 exon
TCTCTTCTCAGCATTCGTGGATCTCTCTTTTCTCCACGGAGGAACAGTCGTGCAAGCCTTTTCAGTTTTCGTGGCAGAGCTCGAGACTTTGGCTCAGAGAATGATTTCGCGGACGATGAGCACAGCACATTTGAGGACAGCGACAGTCGACGAGGATCCCTCTTCGTGCCTCGTTGTGTTGAGAGGCGAAGTTCTACCGTCAGCCACTGCAGCCTCACAGCACCCAGGATTATGCTGCCAGCCAACGGGAAAATGCACTGCACAGTAGACTGCAATGGAGTGGTTTCCCTGGTTGGCGGGACATCTGTGCCAACATCACCAATTGGACGTTTGCTACCTGAG
Seq A exon
GGCACAACAACCGAGTCTGACGTCCGTAAGAAACGTTCAGGATCACACCAGCCTTCTGATTACCTCGAGGAGACAGTAGCCAGGAAAAGAGCAATGAGCGTGGCCAGCATTCTCACCAATACTATGGAAG
Seq C2 exon
AACTGGAGGAATCCCGGCAGAAGTGCCCTCCTTGTTGGTACAAGTTTGCCAACAGCTTCCTCATCTGGGACTGCAGTCCGGCTTGGCTGAAGGTGAAGGAGATCATGAACATGATCGTGATGGATCCGTTTGTAGACCTGGCCATAACCATCTGCATTGTTCTCAACACCCTCTTCATGGCTATGGAACACTACCCGATGACTACCCAGTTCAGCCATCTGCTGTCAGTTGGGAACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'17-17,'17-16,18-17=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.228 A=0.455 C2=0.000
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=PD(15.2=24.6),PF0310514=SPX=PD(41.4=79.8),PF119333=DUF3451=FE(51.4=100)
A:
PF0310514=SPX=PD(10.7=65.9),PF119333=DUF3451=PD(16.4=81.8)
C2:
PF0052026=Ion_trans=PU(1.6=3.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CGAAGTTCTACCGTCAGCCAC
R:
CTCCTTCACCTTCAGCCAAGC
Band lengths:
257-387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]