DreEX6081078 @ danRer10
Exon Skipping
Gene
ENSDARG00000005775 | scn8aa
Description
sodium channel, voltage gated, type VIII, alpha subunit a [Source:ZFIN;Acc:ZDB-GENE-000828-1]
Coordinates
chr23:27325085-27327477:-
Coord C1 exon
chr23:27327373-27327477
Coord A exon
chr23:27327014-27327284
Coord C2 exon
chr23:27325085-27326911
Length
271 bp
Sequences
Splice sites
3' ss Seq
GATCTTTTTCTCTTGTTTAGAAC
3' ss Score
9.4
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
Exon sequences
Seq C1 exon
TTTGGAGGTCAGGATATCTTCATGACTGAGGAACAGAAAAAGTACTACAATGCAATGAAAAAGCTTGGCTCAAAGAAACCTCAGAAGCCCATACCCAGACCCCAG
Seq A exon
AACAAGCTCCAGGGTATGGTGTTTGACTTTGTGACACAGCAGGTCTTTGATATTTCCATCATGATCCTCATCTGTTTGAACATGGTCACCATGATGGTTGAGACAGATGATCAATCACAGGAGACGGAAAACATTCTGTACTGGATCAACTTCATCTTTATTGTGGCCTTCACTTCAGAGTTTGTCCTGAAGCTCTTTGCGCTGCGTCATTATTACTTCACCAATGGCTGGAACATCTTTGACTGTGTTGTGGTCATTCTCTCTATCGTTG
Seq C2 exon
GTATGTTCCTGGCTGATCTGATTGAGAAGTACTTTGTGTCACCAACATTGTTCAGGGTAATCCGTCTGGCTCGAATTGGACGTATTTTGCGTCTGATCAAAGGAGCAAAGGGCATTCGGACTTTACTGTTTGCCTTGATGATGTCACTGCCGGCCCTGTTCAATATTGGCCTTTTGCTGTTCTTGGTTATGTTCATTTTCTCTATTTTTGGCATGTCAAACTTTGCCTACGTGAAGCGGGAGTCTGGCATAGATGACATGTATAACTTTGAAACATTTGGCAATAGCATGATCTGCCTGTTCATGATAACCACCTCAGCCGGATGGGACGGCCTTCTCGCTCCCATTCTCAACTACCCGCCAGATTGTGAGCCAACTAAAGAAAATCCAGGTACTAGTGTTAAAGGTAACTGTGGAAACCCTTCGGTGGGCATCTTCTTCTTTGTCATGTATATTATTGTCTCGTTCCTCATCGTGGTGAACATGTACATCGCCATTATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005775-'32-37,'32-36,33-37=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.196
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(20.5=47.3)
C2:
PF0052026=Ion_trans=PD(79.0=43.3),PF0061222=IQ=WD(100=5.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTTGGCTCAAAGAAACCTCA
R:
ATCTATGCCAGACTCCCGCTT
Band lengths:
298-569
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]