DreEX6081077 @ danRer10
Exon Skipping
Gene
ENSDARG00000005775 | scn8aa
Description
sodium channel, voltage gated, type VIII, alpha subunit a [Source:ZFIN;Acc:ZDB-GENE-000828-1]
Coordinates
chr23:27327014-27327708:-
Coord C1 exon
chr23:27327571-27327708
Coord A exon
chr23:27327373-27327477
Coord C2 exon
chr23:27327014-27327284
Length
105 bp
Sequences
Splice sites
3' ss Seq
AATATTGTTTATGGCTATACTTT
3' ss Score
-5.25
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
Exon sequences
Seq C1 exon
GTGGAAGACCAGCCGAAGTATGAAGACAATATCTACATGTATATCTATTTTGTCATCTTCATTATATTTGGCTCTTTCTTCACCCTCAATCTCTTCATTGGTGTGATTATTGATAACTTCAACCAGCAGAAGAAAAAG
Seq A exon
TTTGGAGGTCAGGATATCTTCATGACTGAGGAACAGAAAAAGTACTACAATGCAATGAAAAAGCTTGGCTCAAAGAAACCTCAGAAGCCCATACCCAGACCCCAG
Seq C2 exon
AACAAGCTCCAGGGTATGGTGTTTGACTTTGTGACACAGCAGGTCTTTGATATTTCCATCATGATCCTCATCTGTTTGAACATGGTCACCATGATGGTTGAGACAGATGATCAATCACAGGAGACGGAAAACATTCTGTACTGGATCAACTTCATCTTTATTGTGGCCTTCACTTCAGAGTTTGTCCTGAAGCTCTTTGCGCTGCGTCATTATTACTTCACCAATGGCTGGAACATCTTTGACTGTGTTGTGGTCATTCTCTCTATCGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005775-'31-36,'31-35,32-36=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=PD(15.2=76.1)
A:
NO
C2:
PF0052026=Ion_trans=PU(20.5=47.3)
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:
TGGCTCTTTCTTCACCCTCAA
R:
ACAAACTCTGAAGTGAAGGCCA
Band lengths:
255-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]