BtaEX0031577 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000019385 | SCN3A
Description
sodium channel, voltage gated, type III alpha subunit [Source:HGNC Symbol;Acc:HGNC:10590]
Coordinates
chr2:31209349-31211332:+
Coord C1 exon
chr2:31209349-31209477
Coord A exon
chr2:31209970-31210061
Coord C2 exon
chr2:31211060-31211332
Length
92 bp
Sequences
Splice sites
3' ss Seq
ACTCTGATTTAATTCTACAGGTA
3' ss Score
9.49
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
Exon sequences
Seq C1 exon
GTACACATTCACTGGAATCTATACCTTTGAGTCACTTATAAAAATCTTGGCAAGAGGGTTTTGCTTAGAAGATTTTACATTCCTTCGTGATCCATGGAACTGGCTGGATTTCAGTGTCATAGTCATGGC
Seq A exon
GTATGTAACAGAATTTGTAAACCTAGGCAATGTTTCAGCTCTTCGAACTTTCAGAGTCTTGAGAGCTCTGAAAACTATTTCTGTAATTCCAG
Seq C2 exon
GTTTAAAGACCATCGTGGGGGCCCTGATCCAGTCTGTGAAGAAGCTTTCTGACGTCATGATCTTGACTGTGTTCTGTCTGAGCGTGTTTGCCCTAATTGGTCTGCAGCTGTTCATGGGCAACCTGCGGAATAAATGCTTACAATGGCCCCCAAGCGATTCTGCTTTTGAAACCAACACCACCTCTTTATTTAATGGCACAATGAATTCAAATGGGACATTTGTTAATGTAACAATGAGCACATTTAACTGGAAGGATTACATTGAAGATGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019385-'5-7,'5-5,6-7
Average complexity
S
Mappability confidence:
100%=100=60%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(16.0=100)
A:
PF0052026=Ion_trans=FE(11.6=100)
C2:
PF0052026=Ion_trans=FE(34.0=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTGGCAAGAGGGTTTTGCT
R:
TTAGGGCAAACACGCTCAGAC
Band lengths:
181-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development