GgaEX6042532 @ galGal4
Exon Skipping
Gene
ENSGALG00000011040 | SCN3A
Description
sodium channel, voltage gated, type III alpha subunit [Source:HGNC Symbol;Acc:HGNC:10590]
Coordinates
chr7:19421688-19427423:+
Coord C1 exon
chr7:19421688-19421987
Coord A exon
chr7:19425337-19425684
Coord C2 exon
chr7:19427291-19427423
Length
348 bp
Sequences
Splice sites
3' ss Seq
TCTATTTAAATCTTTTACAGTCT
3' ss Score
7.19
5' ss Seq
GAGGTAATT
5' ss Score
8.88
Exon sequences
Seq C1 exon
GCAACGGCAGCAGTGGCAGCAGCATCAGTTGCATCAAGGGATTTCAGTGGGGTAGGGGGATTAGGAGAACTCTTGGAAAGTTCTTCAGAAGCATCAAAGTTGAGCTCAAAGAGTGCTAAAGAAAGAAGAAACAGAAGGAAGAGAAGAAGACAGAAAGAAATGTCTGAAGCAGAAGACAAGGGAGATATTGACAAGTTCCCCAAGTCCGAGTCAGAAGATAGTATCAGAAGAAAAAGTTTCCGCTTCTCCACAGAAGGAAGTCAACTGACATATGAAAAAAGGTTCACATCTCCCCATCAG
Seq A exon
TCTTTGCTAAGCATCCGTGGTTCCCTGTTCTCACCAAGGCGCAACAGCAAAACAAGCATTTTCAGTTTCAGAGGTCGCACAAGGGATATAGGATCTGAAAATGACTTTGCTGATGATGAGCACAGCACTCTTGAGGACAACGAAAGCAGAAGGGATTCTCTCTTTGTTCCAAATCGACATGGAGAAAGGCGTAACAGCAACATCAGTCAGGCCAGTATGTCATCCAGAGTGGTGCCAGCCCTTCCGGCCAATGGGAAGATGCATAGCGCTGTAGATTGCAACGGAGTAGTCTCCTTAGTTGGAGGACCTTCAACTCTAACTTCACCTACTGGACAGCTTCTACCAGAG
Seq C2 exon
GGCACCACTACTGAAACAGAAATAAGAAAAAGAAGACTGAGTTCTTATCAGATTTCCATGGAAATGCTGGAAGATTCTGCTGCAAGACAAAGAGCAATGAGTATAGCCAGTATACTTACAAACACAATGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011040-'10-12,'10-11,11-12=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.520 A=0.638 C2=0.133
Domain overlap (PFAM):
C1:
PF119333=DUF3451=PU(31.4=71.0)
A:
PF119333=DUF3451=FE(50.9=100)
C2:
PF119333=DUF3451=PD(16.4=82.2)
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:
AGGGATTTCAGTGGGGTAGGG
R:
TTGCAGCAGAATCTTCCAGCA
Band lengths:
349-697
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]