GgaEX0016518 @ galGal4
Exon Skipping
Gene
ENSGALG00000011009 | SCN2A
Description
sodium channel, voltage gated, type II alpha subunit [Source:HGNC Symbol;Acc:HGNC:10588]
Coordinates
chr7:19357965-19359717:-
Coord C1 exon
chr7:19359654-19359717
Coord A exon
chr7:19358966-19359107
Coord C2 exon
chr7:19357965-19358171
Length
142 bp
Sequences
Splice sites
3' ss Seq
CATTTCCTCTTCTTTTGTAGTCA
3' ss Score
8.36
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
Exon sequences
Seq C1 exon
ATCATTTCTACTTCTTGGAAGGACAAAATGATGCTCTGCTGTGTGGCAATAGCTCAGATGCAGG
Seq A exon
TCAATGTCCAGAAGGATATATATGTGTGAAAGCTGGTAGAAACCCCAACTATGGCTACACAAGTTTTGATACATTCAGTTGGGCATTCTTGTCACTGTTTCGATTGATGACTCAGGACTTTTGGGAGAATCTTTACCAGCTG
Seq C2 exon
ACACTGCGTGCTGCTGGAAAAACATATATGATATTTTTTGTTTTGGTCATTTTCCTGGGCTCTTTCTACCTGATTAATTTGATCCTGGCTGTGGTTGCTATGGCCTATGAAGAACAGAATCAAGCAACCATGGAAGAAGCAGAACAGAAAGAAGCAGAATTTCAGCAAATGCTGGAACAACTGAAAAAGCAACAGGAAGAAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011009_CASSETTE3
Average complexity
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=0.203
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(7.8=100)
A:
PF0052026=Ion_trans=FE(17.5=100)
C2:
PF0052026=Ion_trans=PD(11.6=44.9),PF143621=DUF4407=PU(39.3=79.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGCTCTGCTGTGTGGCAAT
R:
CTGAGCTTCTTCCTGTTGCTT
Band lengths:
242-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]