GgaEX6042536 @ galGal4
Exon Skipping
Gene
ENSGALG00000011040 | SCN3A
Description
sodium channel, voltage gated, type III alpha subunit [Source:HGNC Symbol;Acc:HGNC:10590]
Coordinates
chr7:19414402-19416706:+
Coord C1 exon
chr7:19414402-19414489
Coord A exon
chr7:19415980-19416108
Coord C2 exon
chr7:19416615-19416706
Length
129 bp
Sequences
Splice sites
3' ss Seq
CCTGCTTTGATGCATTTCAGGTA
3' ss Score
9.87
5' ss Seq
GGCGTAAGT
5' ss Score
9.39
Exon sequences
Seq C1 exon
TATTCAGCATGCTTATCATGTGCACTATTTTGACAAACTGTGTATTTATGACCATGAGTAACCCTCCAGACTGGACAAAGAATGTAGA
Seq A exon
GTACACTTTCACTGGAATTTATACCTTTGAATCACTGATAAAAATTCTTGCAAGGGGCTTCTGCTTAGAAGGTTTTACTTTTCTGCGAGACCCATGGAACTGGCTTGACTTCAGTGTCATTCTAATGGC
Seq C2 exon
GTATGTAACAGAATTTGTAAACCTAGGCAATGTTTCAGCTCTTCGAACTTTCAGAGTATTGAGAGCTTTGAAAACTATTTCTGTAATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011040-'2-4,'2-3,3-4=AN
Average complexity
A_C2
Mappability confidence:
57%=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=PU(0.7=6.7)
A:
PF0052026=Ion_trans=FE(16.0=100)
C2:
PF0052026=Ion_trans=FE(11.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGCTTATCATGTGCACTATTTTGA
R:
GGGATTACAGAAATAGTTTTCAAAGC
Band lengths:
171-300
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]