DreEX6081075 @ danRer10
Exon Skipping
Gene
ENSDARG00000005775 | scn8aa
Description
sodium channel, voltage gated, type VIII, alpha subunit a [Source:ZFIN;Acc:ZDB-GENE-000828-1]
Coordinates
chr23:27327571-27328236:-
Coord C1 exon
chr23:27327952-27328236
Coord A exon
chr23:27327795-27327848
Coord C2 exon
chr23:27327571-27327708
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATACTGATTCTCCCTATTAGGCA
3' ss Score
6.87
5' ss Seq
AGGGTAATT
5' ss Score
6.62
Exon sequences
Seq C1 exon
GTGGTAGTCAACGCCTTGGTGGGTGCCATCCCCTCCATTATGAATGTGTTGCTGGTTTGCCTCATCTTTTGGCTGATTTTCAGTATCATGGGTGTCAATATGTTTGCGGGAAAGTACTACTACTGCTACAACGAGACTGAAAAGGCATACTTTGAGCTAGATGTGGTCAACAACAAATCTGAGTGCTTTGCGTTAATTGAGCAAAACTACACTGAGGTGCGTTGGAAGAACGTCAAAATCAACTTTGACAACGTGGGTGCTGGTTACCTGGCTCTTCTGCAAGTG
Seq A exon
GCAACCTTTAAAGGATGGATGGACATCATGTATGCAGCAGTTGACTCACGAAGG
Seq C2 exon
GTGGAAGACCAGCCGAAGTATGAAGACAATATCTACATGTATATCTATTTTGTCATCTTCATTATATTTGGCTCTTTCTTCACCCTCAATCTCTTCATTGGTGTGATTATTGATAACTTCAACCAGCAGAAGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005775-'29-34,'29-33,30-34=AN
Average complexity
A_S
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=FE(40.9=100)
A:
PF0052026=Ion_trans=FE(7.4=100)
C2:
PF0052026=Ion_trans=PD(15.2=76.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
AACTTTGACAACGTGGGTGCT
R:
TGAGGGTGAAGAAAGAGCCAA
Band lengths:
133-187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]