DreEX6020632 @ danRer10
Exon Skipping
Gene
ENSDARG00000062744 | scn1lab
Description
sodium channel, voltage-gated, type I like, alpha b [Source:ZFIN;Acc:ZDB-GENE-060906-1]
Coordinates
chr6:10010985-10016011:-
Coord C1 exon
chr6:10015907-10016011
Coord A exon
chr6:10015516-10015786
Coord C2 exon
chr6:10010985-10013988
Length
271 bp
Sequences
Splice sites
3' ss Seq
GTCTCTATATTTCTCTCTAGAAT
3' ss Score
9.3
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
Exon sequences
Seq C1 exon
CTTGGAGGTCAGGATATCTTCATGACAGAAGAGCAAAAGAAATATTACAATGCTATGAAGAAGTTGGGATCTAAGAAACCTCAGAAGCCAATTCCCAGACCTGCG
Seq A exon
AATAAGTTTCAAGGCCTTGTCTTTGACCTAATCACCAAACAAGCCTTCGACATAATCATTATGATCCTGATCTGCTTGAACATGGTGACCATGATGGTGGAAACCGATGACCAGACAGAGGATATGGACAATATTCTGTACTGGATAAACCTGGTTTTCATCATCCTCTTCACTGGAGAATGTGTGCTAAAGATGATCTCCCTGCGCCACTACTTCTTCACCATCGGCTGGAATGTGTTTGACTTTGTTGTGGTGATTCTATCAATTGTTG
Seq C2 exon
GCATGTTCCTCTCTGAGATGATAGAGAAATATTTTGTATCGCCAACCTTATTTCGAGTCATTCGACTTGCCCGAATTGGTCGCATTCTTCGTCTTATCAAAGGAGCCAAAGGCATTCGTACTCTTCTGTTTGCCTTGATGATGTCACTTCCTGCCTTGTTCAATATTGGCCTCCTCCTCTTCCTGGTCATGTTTATCTATGCCATCTTCGGAATGTCCAACTTTGCCTATGTGAAGCGGGAAGCGGGGATTGATGACATGTTTAACTTTGAGACATTTGGGAACTCCATGCTTTGTCTGTTTCAAATCACCACTTCTGCAGGCTGGGACGGCCTCTTGGCACCTATCCTGAACAAGCAAGATCCAGATTGCGACAGCGAAATGGAGCACCCAGGGAGCTTCTACCGAGGAAACTGCGGCAACCCTTCGGTCGGAATCTTCTTCTTTGTGAGCTACATCATCATCTGCTTCTTGATTGTGGTCAATATGTACATTGCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062744-'34-35,'34-34,35-35=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=0.000 A=0.000 C2=0.224
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(20.4=47.3)
C2:
PF0052026=Ion_trans=PD(79.1=41.9),PF0061222=IQ=WD(100=5.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
AAACCTCAGAAGCCAATTCCCA
R:
AACATGTCATCAATCCCCGCT
Band lengths:
292-563
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]