DreEX6038633 @ danRer10
Exon Skipping
Gene
ENSDARG00000086819 | scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:ZFIN;Acc:ZDB-GENE-040426-751]
Coordinates
chr9:50275635-50277014:-
Coord C1 exon
chr9:50276929-50277014
Coord A exon
chr9:50276708-50276836
Coord C2 exon
chr9:50275635-50275726
Length
129 bp
Sequences
Splice sites
3' ss Seq
GACACTCTTGTTTTGAACAGATA
3' ss Score
7.81
5' ss Seq
GGCGTAAGT
5' ss Score
9.39
Exon sequences
Seq C1 exon
TTCAATTTTATTATAATCTGCACTATTCTGGCAAACTGTGCATTCATGGTCTACACACAAACCCCGGACTGGGCCAAGAGTGTAGA
Seq A exon
ATATGTCTTCACTGGGATATACACTTTAGAAGCACTGGTCAAGATCACCGCCAGGGGATTCTGTGTGGGACGCTTTACTTTTCTCAGAGATCCGTGGAATTGGTTGGATTTTATTGTTATAGTCATGGC
Seq C2 exon
ATATGTAACAGAGTTTGTGGATTTGGGGAGCGTGTCCGCCCTGCGAGCATTCAGAGTTCTTCGAGCCCTGAAAACTATATCAGTCGTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086819-'9-10,'9-9,10-10=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No 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(1.4=6.5)
A:
PF0052026=Ion_trans=FE(29.5=100)
C2:
PF0052026=Ion_trans=FE(21.2=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGCACTATTCTGGCAAACTGT
R:
CTGGGACGACTGATATAGTTTTCAGG
Band lengths:
162-291
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]