DreEX6023036 @ danRer10
Exon Skipping
Gene
ENSDARG00000018032 | scn8ab
Description
sodium channel, voltage gated, type VIII, alpha subunit b [Source:ZFIN;Acc:ZDB-GENE-060906-2]
Coordinates
chr6:39406520-39412409:-
Coord C1 exon
chr6:39412255-39412409
Coord A exon
chr6:39410276-39410449
Coord C2 exon
chr6:39406520-39406642
Length
174 bp
Sequences
Splice sites
3' ss Seq
TCTTCTGTTTTGTTTTTTAGGCA
3' ss Score
11.99
5' ss Seq
GATGTAAGT
5' ss Score
9.11
Exon sequences
Seq C1 exon
CTTGTGTGGCGCGCTACAAATGTTGTGATGTGCCTATTACTGAGGGCTGGGGGAAGTACTGGTGGTTTCTGAGGAAAACTTGCTACCTCATTGTTGAGCACAACTGGTTTGAGACGCTCATCATTTTTATGATTCTTCTCAGCTCTGGAGCTTTG
Seq A exon
GCATTTGAGGATGTATATATTGAACAGAGGAAAACCATCCAGATCATTCTTGAATATGCAGACAGAGTCTTCACATACATCTTCATCCTGGAAATGTTGCTAAAATGGGTGGCCTATGGGTTTGTCAAATACTTCACCAATGCATGGTGCTGGCTGGACTTCTTCATTGTGGAT
Seq C2 exon
GTGTCTATAGTCAGCCTTATAGCTAATGCGCTGGGCTACTCAGACTTGGGCCCCATAAAGTCCCTGAGAACTTTGAGGGCTCTCAGGCCCCTGAGAGCTTTGTCCCGGTTTGAGGGCATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018032-'24-23,'24-20,25-23=AN
Average complexity
A_C1
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:
PF065128=Na_trans_assoc=PD(20.0=84.6)
A:
PF0052026=Ion_trans=PU(17.0=67.2)
C2:
PF0052026=Ion_trans=FE(17.4=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GCGCGCTACAAATGTTGTGAT
R:
AAACCGGGACAAAGCTCTCAG
Band lengths:
258-432
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]