GgaEX6018316 @ galGal4
Exon Skipping
Gene
ENSGALG00000006072 | SCN10A
Description
sodium channel, voltage gated, type X alpha subunit [Source:HGNC Symbol;Acc:HGNC:10582]
Coordinates
chr2:5360857-5364221:+
Coord C1 exon
chr2:5360857-5361114
Coord A exon
chr2:5362095-5362215
Coord C2 exon
chr2:5364128-5364221
Length
121 bp
Sequences
Splice sites
3' ss Seq
TCTTTATGTTTATTTTTAAGATC
3' ss Score
9.18
5' ss Seq
CATATCCTT
5' ss Score
-20.06
Exon sequences
Seq C1 exon
AAAATGGCTGACTTCCTACTACCTGGTACCAACAACTTCCGTAAATTCACTCCGGAATCCTTGGCTGCTATTGAAAAGAGAATTGCTGCCAAGAAGGATCATCAAAAAAGTACCTTAGATCAAAAACCTGAGGAGAAACCACGTCCTCAGCTTGACCTAAAAGCTTTCCAGAAATTGCCAGCTCTCTATGGAAATCCTCCTCCAGAGCTCATTGGGGAACCACTGGAAGACCTTGACCCATACTACAAAGATCGCAAG
Seq A exon
ATCTTCATAGTGTTAAACAAACAGAAAACAATCTTCCGGTTCACAGCTACGCGTGCCTTATGGATCCTCAGTCCTTTCCATCCAATCCGAAGAGCAGCAATTAAAATTTCAATACATTCAT
Seq C2 exon
TATTCACCTGGTTTATAATATGCACAATTATAACTAATTGTGTGTTCATGGCTCAGAATGAGTCCTCCAGGAGTTCATCTCCATCGTGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006072-'0-1,'0-0,1-1=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=0.174 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0052026=Ion_trans=PU(0.8=6.2)
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:
TGCTGCCAAGAAGGATCATCA
R:
ACTCCTGGAGGACTCATTCTGA
Band lengths:
249-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]