DreEX6020614 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10063995-10065614:-
Coord C1 exon
chr6:10065479-10065614
Coord A exon
chr6:10064277-10064405
Coord C2 exon
chr6:10063995-10064086
Length
129 bp
Sequences
Splice sites
3' ss Seq
TTTGGCTTGTGTGCGTTCAGATA
3' ss Score
7.72
5' ss Seq
GGCGTGAGT
5' ss Score
7
Exon sequences
Seq C1 exon
TTTACTTGTGTGTTTTCTTTGTATATATTCCTTGACTGATGCTCACTCTGTTCAGTTTTGTGATCATGTGCACAATCTTGACCAACTGCGCCTTCATGACGCTCAGCAATCCCCCAGAATGGGCCAAGAACGTGGA
Seq A exon
ATACACGTTCACAGGGATCTACACCTTCGAGTCCCTGATTAAGATCCTGGCTCGGGGCTTCTGCGTGGGGAAGTTCACTTTCCTGAGAGACCCCTGGAACTGGCTGGATTTCAGTGTCATTCTGATGGC
Seq C2 exon
GTATGTAACTGAGTTTGTAAACCTAGGCAATGTGTCAGCTCTCCGCACTTTCAGAGTGCTCAGAGCTTTGAAAACTATCTCAGTCATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'8-8,'8-7,9-8=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PU(0.8=6.5)
A:
PF0052026=Ion_trans=FE(16.8=100)
C2:
PF0052026=Ion_trans=FE(12.1=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCCTTGACTGATGCTCACTCTG
R:
CTGGGATGACTGAGATAGTTTTCA
Band lengths:
202-331
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]