BtaEX0031578 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000019385 | SCN3A
Description
sodium channel, voltage gated, type III alpha subunit [Source:HGNC Symbol;Acc:HGNC:10590]
Coordinates
chr2:31227807-31234551:+
Coord C1 exon
chr2:31227807-31228097
Coord A exon
chr2:31233050-31233346
Coord C2 exon
chr2:31234419-31234551
Length
297 bp
Sequences
Splice sites
3' ss Seq
CTTCCTTGCTCTCTCCTCAGTCT
3' ss Score
10.35
5' ss Seq
TTGGTGGGT
5' ss Score
4.3
Exon sequences
Seq C1 exon
GCAGTTGCAGCAGCATCAGCTGCTTCAAGAGATTTCAGTGGAATAGGTGGGTTAGGAGAGCTCTTGGAAAGTTCGTCAGAAGCATCAAAATTAAGCTCCAAAAGTGCTAAGGAGTGGAGGAACCGAAGAAAGAAAAGAAGACAGAGGGAGAATCTTGAAGGAAACAACAAAGGAGAGGGAAACAGGTTTCCCAAGTCTGAATCTGAGGACAGTGTCAAAAGAAGAAGTTTCCTCTTCTCCATGGATGGAAATCGACTAACTAGTGACAAGAAATTCTACTCCCCTCATCAG
Seq A exon
TCTCTGTTAAGTATCCGTGGTTCCCTGTTTTCCCCACGACGCAATAGCAAAACAAGTATTTTCAGCTTCAGAGGTCGGGCAAAGGATATCGGTTCTGAAAATGACTTTGCTGATGACGAACACAGTACATTTGAAGACAGCGAGAGCAGGAGAGACTCACTGTTTGTGCCGCACAGACACGGAGAGCGACGCAACAGTAACGTTAGTCAGGCCAGTATGTCATCCAGGATGGTGCCAGGGCTTCCAGCCAATGGGAAGATGCACAGCACTGTGGATTGCAATGGTGTGGTTTCCTTG
Seq C2 exon
GGTACCACCACTGAAACGGAAGTCAGAAAGAGAAGGCTAAGTTCTTACCAGATTTCAATGGAGATGCTAGAAGATTCCTCCGGAAGGCAAAGAGCCATGAGCATAGCCAGCATCTTGACTAACACGATGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019385_CASSETTE1
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.438 A=0.665 C2=0.244
Domain overlap (PFAM):
C1:
PF119333=DUF3451=PU(31.3=73.2)
A:
PF119333=DUF3451=FE(50.2=100)
C2:
PF119333=DUF3451=PD(16.3=82.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTAAGGAGTGGAGGAACCGA
R:
AGATGCTGGCTATGCTCATGG
Band lengths:
301-598
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development