DreEX6020622 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10040402-10047671:-
Coord C1 exon
chr6:10047542-10047671
Coord A exon
chr6:10043179-10043417
Coord C2 exon
chr6:10040402-10040575
Length
239 bp
Sequences
Splice sites
3' ss Seq
ACTCTAAACTCTGTTCACAGAAC
3' ss Score
7.65
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
Exon sequences
Seq C1 exon
GGCACAACAACCGAGTCTGACGTCCGTAAGAAACGTTCAGGATCACACCAGCCTTCTGATTACCTCGAGGAGACAGTAGCCAGGAAAAGAGCAATGAGCGTGGCCAGCATTCTCACCAATACTATGGAAG
Seq A exon
AACTGGAGGAATCCCGGCAGAAGTGCCCTCCTTGTTGGTACAAGTTTGCCAACAGCTTCCTCATCTGGGACTGCAGTCCGGCTTGGCTGAAGGTGAAGGAGATCATGAACATGATCGTGATGGATCCGTTTGTAGACCTGGCCATAACCATCTGCATTGTTCTCAACACCCTCTTCATGGCTATGGAACACTACCCGATGACTACCCAGTTCAGCCATCTGCTGTCAGTTGGGAACCTG
Seq C2 exon
GTATTCACAGGAATCTTCACAGCAGAGATGTGTCTGAAGGTCATTGCTCTGGATCCCTATTATTATTTCCAAGAAGGCTGGAATATCTTTGATGGCATCATCGTGAGTCTGAGTCTTATGGAGTTGGGCCTGGCCAATGTGGAGGGGCTTTCAGTGCTGCGCTCCTTCAGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'18-18,'18-17,19-18=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=0.455 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0310514=SPX=PD(10.7=65.9),PF119333=DUF3451=PD(16.4=81.8)
A:
PF0052026=Ion_trans=PU(1.6=3.8)
C2:
PF0052026=Ion_trans=FE(30.0=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:
CACAACAACCGAGTCTGACGT
R:
CACTGAAAGCCCCTCCACATT
Band lengths:
284-523
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]