GgaEX1051170 @ galGal4
Exon Skipping
Gene
ENSGALG00000011040 | SCN3A
Description
sodium channel, voltage gated, type III alpha subunit [Source:HGNC Symbol;Acc:HGNC:10590]
Coordinates
chr7:19436486-19447828:+
Coord C1 exon
chr7:19436486-19436971
Coord A exon
chr7:19442794-19442847
Coord C2 exon
chr7:19447708-19447828
Length
54 bp
Sequences
Splice sites
3' ss Seq
ACCATTCTTACTTCTCACAGGGG
3' ss Score
8.26
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
Exon sequences
Seq C1 exon
GTTCTGAACCTGTTTCTGGCCTTGCTGCTGAGCTCGTTTAGCTCAGACAACCTTGCTGCTACAGATGATGATAATGAAATGAACAATCTCCAGATTGCTGTGGCAAGAATTCAGAAGGGAATAGATTATATTAAAAAAAAGATACAGGAATTCATACAAAAAGCCTTCGTTAGAAAACAGAAGGCTTTAGAAGAAATCAAAGCACTTGAAGAGATAAACAACAAGAAAGACAGCTGCATTTCCAATCATACTGCTGTTGAAATAAGCAAAGATATGAATTATCTTAAAGATGGGAATGGAACTACCAGTGGTGTAGGCACAGGCAGCAGTGTGGAAAAATATGTTGTTGATGAAAGTGATTACATGTCCTTCATAAACAACCCAGGCCTCACCGTGACAGTGCCAATTGCTGTTGGAGAATCTGACTTTGAAAATTTAAATACAGAAGAATTTAGCAGTGAATCTGATATGGAAGAAAGCAAACAG
Seq A exon
GGGTAAAACCAAGCTGGAGCAATCAAGAATGCAGCTCTGGTGCTTTTTAACCAG
Seq C2 exon
AAACTAAATGCATCCAGTTCATCTGAAGGCAGCACAGTTGATATTGCCCCTCCTGGAGAGGGAGAGCAAGCAGAAATTGAACCTGAAGAAGCTCTTGAACCAGAAGCCTGTTTTACAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011040_CASSETTE1
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.160 A=1.000 C2=0.756
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.2=4.9),PF065128=Na_trans_assoc=PU(61.6=85.2)
A:
PF065128=Na_trans_assoc=PD(0.1=0.0)
C2:
PF065128=Na_trans_assoc=FE(17.9=100)
Main Inclusion Isoform:
ENSGALT00000017981fB11731
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCACCGTGACAGTGCCAATT
R:
TGCTGCCTTCAGATGAACTGG
Band lengths:
133-187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]