DreEX6081070 @ danRer10
Exon Skipping
Gene
ENSDARG00000005775 | scn8aa
Description
sodium channel, voltage gated, type VIII, alpha subunit a [Source:ZFIN;Acc:ZDB-GENE-000828-1]
Coordinates
chr23:27348652-27357173:-
Coord C1 exon
chr23:27356817-27357173
Coord A exon
chr23:27352692-27353162
Coord C2 exon
chr23:27348652-27348769
Length
471 bp
Sequences
Splice sites
3' ss Seq
CTCTCTCACACACTGTTCAGGTG
3' ss Score
8.46
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
Exon sequences
Seq C1 exon
CTGAGAGTGTTCAAGTTGGCTAAGTCATGGCCCACTCTCAACATGCTGATAAAGATCATCGGTAATTCAGTCGGAGCTTTGGGGAACCTGACCCTGGTGTTGGCCATCATTGTCTTTATCTTTGCTGTTGTCGGCATGCAGTTGTTTGGGAAGAGCTACAAGGACTGTGTGTGCAAGATCGCTCAGGATTGTGAGCTGCCCCGTTGGCACATGAACGACTTCTTTCACTCTTTCCTTATTGTCTTCCGAGTGTTATGCGGAGAGTGGATCGAAACCATGTGGGACTGTATGGAGGTGGCTGGACAGGCCATGTGTCTCATCGTATTCATGATGGTCATGGTTATCGGGAACTTGGTG
Seq A exon
GTGTTGAATCTCTTCCTTGCCTTGCTGCTGAGCTCATTCAGCGCAGACAACTTGGCTGCTTCCGATGACGATGGTGAGATGAACAACCTGCAGATCGCAGTTATTCGCATTAAGAAGGGAATCGCCTGGGTGAAGGCTAAAGTTCGAGAACTGGTCAACATCATCCTCGGGAGGAAGGTCACAGACGAAGCCAAGCCGCTTGATGACATGTACGACCGTAAACTGAACTGCATTGCCAATCACACAGGTGTGGACATCAGCCGTGACCTGGACTATCAGAAAAATGGCAACGGAACTACCAGTGGCATTGGCAGCAGTGTAGGAAAATACATGATTGACGATGACCACATGTCCTTCATCCACAACCCCAACCTGACAGTATGTGTGCCCATCGCTGTGGGCGAGTCGGACTTTGAGAATCTTAACACTGAAGATTTCAGCAGCGAGTCTGAGGCAGAGGGCAGCAAAGAA
Seq C2 exon
TTGGATGACATCAGCTCTTCAGAGGGCAGCACCATAGATATTAAACCAGAGGTAGAGGAAGCAGTGGTGGTGGAGACGGTAGAGGAATATGTCGATCCAGAAGCTTGCTGGACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005775-'20-22,'20-21,21-22=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=0.089 C2=0.150
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(62.1=100)
A:
PF0052026=Ion_trans=PD(4.2=5.1),PF065128=Na_trans_assoc=PU(61.0=84.7)
C2:
PF065128=Na_trans_assoc=FE(17.9=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGTGTTGGCCATCATTGT
R:
TTCCTCTACCGTCTCCACCAC
Band lengths:
352-823
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]