GgaEX1051185 @ galGal4
Exon Skipping
Gene
ENSGALG00000006112 | SCN5A
Description
sodium channel, voltage gated, type V alpha subunit [Source:HGNC Symbol;Acc:HGNC:10593]
Coordinates
chr2:5544395-5565282:+
Coord C1 exon
chr2:5544395-5544865
Coord A exon
chr2:5559002-5559148
Coord C2 exon
chr2:5565162-5565282
Length
147 bp
Sequences
Splice sites
3' ss Seq
CCATTTAGGATTATTTCCAGCAG
3' ss Score
0.47
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
Exon sequences
Seq C1 exon
GTGCTCAACCTGTTCCTTGCCTTGCTGCTCAGCTCTTTCAGTGCTGACAACCTTTCGGCACCAGACGAGGATGGAGAGATGAACAACCTGCAGCTTGCCTTTGCTCGGATCAACAGGGGTCTTCAGTATGTGAAACACACCACGTGGGATTTTTGCTGCAACGTCCTCCGGCATCCCAAGACAACAGCTGAGAAGAAGGCAATGATGAAGCTTGCTGCCCAGAATACAGGTGCCCTTAACAATTGTGTCAACAGCCACCCAACTGCTGAGCTTGGCAAAGAGATGGAGAATCACAAAGAGAACCACACAGAGGATGGGACGAATAAAAATGTGGAGAAACACCTGGGAATTACAGACAACGATGACTTTATGACCAATCCTGACCTATCAATTTGTGTTCCTATTGCTGTGGGAGAGTCTGATATCGAGGAGGAAGATGAGGAGCAAAGCACGTTTACAGAAATGGAGCAG
Seq A exon
CAGGAAAAGCAGCTGCAGCTGAGGGGGCAGCGATGCCAAAGCCCAGGCGCCCGAAGTCAGAACTCTGAGATTTGTGAAGAGTTAAGTGAGTTGCACGTGGATAAGCAGTTGAAGGCTGAGCCACCACCTCCAGTAGGGCAAAAAGAG
Seq C2 exon
CTTGATGAAATCAGTCTTTCTGAAGGCAGCACAGTGGATTTGACAAATCCTGCAGAACTGCTGGAGCAGATCCCTGAGTTTGCTGAGGAGCTGATGGAGCCTGAAGATTGCTTCCCCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006112_MULTIEX1-1/2=C1-2
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.433 A=0.776 C2=0.122
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.2=5.1),PF065128=Na_trans_assoc=PU(49.6=84.7)
A:
PF065128=Na_trans_assoc=FE(17.9=100)
C2:
PF065128=Na_trans_assoc=FE(14.9=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTGAGCTTGGCAAAGAGA
R:
CCACTGTGCTGCCTTCAGAAA
Band lengths:
246-393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]