DreEX6038642 @ danRer10
Exon Skipping
Gene
ENSDARG00000086819 | scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:ZFIN;Acc:ZDB-GENE-040426-751]
Coordinates
chr9:50227057-50242006:-
Coord C1 exon
chr9:50241584-50242006
Coord A exon
chr9:50230532-50230664
Coord C2 exon
chr9:50227057-50227211
Length
133 bp
Sequences
Splice sites
3' ss Seq
GTGCGTGTGTGCTCCTGTAGAAA
3' ss Score
8.08
5' ss Seq
CAGGTGATT
5' ss Score
5.95
Exon sequences
Seq C1 exon
GTTCTGAATCTGTTCCTGGCTCTACTGCTTAGCTCCTTCAGTGCCGACAATCTGGCGGTCAGTGGTGAAGAAGACGAAAACAACCTGCAGATCGCTGTCCGTCGAATCAGGAAAGGCTTCACTTTCATCAAAACCTGCCTTCAGAGTTTCTTCAGGAGTGGCTGTTTACGGAAGAAGAAGCAGAAGTCTGCAGATGGCAACATGATCGTGAACTGCAAGGAAAGGAAAGATAGCACAAACCACACTACAATAGAGCTGGTTAAAAGCACTGGAGGAACCGATCTGGATAGCGACACCGAGAATTTTATCAGCAACCCGAGCTTGACTGTTAGTGTCCCGATTGCCGCAGAGGAGTCTGATTTTGAGTGTCTGAACACAGAGGATTTCAGCAGCCTTTCTTCAGACCTAGAGGAGGATAAAGAG
Seq A exon
AAACTGTCTGACGTGGCGTCCAGCTTCTCAGAGGGAAGCACAGTCGACCTCAGACCACTCGGCAAAGATGGAGAAGACGCCCTGGAGTTGGTACTCGAGGAAGAAGCATATCCTGAACCCTGTTTCACAGCAG
Seq C2 exon
GGTGTGTCCGGAGGTTTCGATGTTGTCAGGTGGACGAAGAAAAGGGCATATGGAAGAAATGGTGGCTGCTGAGACAGACCTGCTATAACATAGTGGAGCACAGCTGGTTCGAGACCTTCATCGTCTTCATGATCCTGCTGAGCAGTGGTGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086819-'25-24,'25-23,26-24=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=0.078 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.7=6.3),PF065128=Na_trans_assoc=PU(56.7=83.1)
A:
PF065128=Na_trans_assoc=FE(21.2=100)
C2:
PF065128=Na_trans_assoc=PD(21.2=84.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGATAGCGACACCGAGAA
R:
ACCAGCTGTGCTCCACTATGT
Band lengths:
250-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]