DreEX6038648 @ danRer10
Exon Skipping
Gene
ENSDARG00000086819 | scn1a
Description
sodium channel, voltage-gated, type I, alpha [Source:ZFIN;Acc:ZDB-GENE-040426-751]
Coordinates
chr9:50208646-50215765:-
Coord C1 exon
chr9:50215661-50215765
Coord A exon
chr9:50212605-50212875
Coord C2 exon
chr9:50208646-50210037
Length
271 bp
Sequences
Splice sites
3' ss Seq
CATTTCCTCATTCATTTCAGAAC
3' ss Score
8.89
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
Exon sequences
Seq C1 exon
TTTGGGGGTCAGGATATTTTCATGACAGAAGAACAGAAGAAATATTACAACGCCATGAAGAAACTAGGCTCAAAGAAACCCCAAAAACCCATTCCAAGACCAAAA
Seq A exon
AACAAGATTCAAGGACTCATCTTTGACCTCGTAACCAAACAGGCCTTTGACATTTTCATTATGGTCCTGATCTGGCTCAACATGGTCACTATGATGCTGGAGACGGAGGATCAGTCGATTGAAATGACCCGTGCGCTGTACTGGATCAATGTCATTTTCATTGTGCTCTTCACCACCGAATGCGTCCTGAAGATGATCGCTCTGCGCCATTACTTCTTCACCGTTGGCTGGAATGTGTTTGACTTTATCGTGGTCATCCTGTCTATAGTTG
Seq C2 exon
GCATGTCTCTAACAGAAGTCATCAAGAAGTACTTCGTCTCGCCCACCTTGTTTCGTGTTATTCGCCTGGCCCGGATCGGCCGCGTCCTACGCCTCATTCGAAGCGCCAAAGGCATACGGACCCTTCTGTTCGCGTTGATGATGTCCCTTCCTGCCCTTTTCAACATCGGCCTCCTTCTGTTCCTCGTGATGTTCATCTACGCCATCTTCGGCATGTCCAACTTTGCCTACGTCAAAAAAACGGCCGGCATCGACGACATGTTCAACTTCGAAACCTTTCCCAACAGCATGCTCTGTTTGTTTCAGATAACCACATCGGGGGGCTGGGACGGCCTGTTAGCGCCTATGCTAAACAGCAAACCTCCAGACTGTGATCCGACGAAAAACTTCACTGGAAGTTCGGTCGTAGGCGACTGCGGGAATCCGTCCATCGGCATTTTCTTCTTCGTAAGCTACATCATCATATGCTTTCTCATTGTAGTAAACATGTACATCGCTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086819-'35-35,'35-34,36-35=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=0.278
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(19.9=46.2)
C2:
PF0052026=Ion_trans=PD(79.1=42.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCCAAAAACCCATTCCAAGA
R:
TTGAACATGTCGTCGATGCCG
Band lengths:
293-564
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]