BtaEX0031572 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30358419-30361685:+
Coord C1 exon
chr2:30358419-30358703
Coord A exon
chr2:30359922-30360269
Coord C2 exon
chr2:30361553-30361685
Length
348 bp
Sequences
Splice sites
3' ss Seq
TTTCGGTTTCAAACTTATAGTCT
3' ss Score
5.44
5' ss Seq
GAGGTGATA
5' ss Score
3.13
Exon sequences
Seq C1 exon
CAGGCAGCAGCTGTAACTGCCTCAGAGCATTCCAGAGAACCTAGTGCAGCAGGCAGGCTCTCAGACAGCTCGTCTGAAGCCTCCAAGTTGAGTTCCAAGAGTGCAAAGGAAAGAAGAAATCGGAGAAAGAAAAGAAAACAGAAAGAGCAATCTGGTGGAGAAGAGAAAGATGATGATGAATTCCAGAAATCTGAATCTGAAGACAGCATCAGGAGGAAAGGGTTTCGCTTCTCCATAGAAGGGAATCGGTTGACATACGAAAAGAGGTACTCCTCCCCACACCAG
Seq A exon
TCTTTGTTGAGCATCCGTGGCTCCTTATTTTCTCCAAGGCGAAATAGCAGAACAAGCCTTTTCAGCTTCAGAGGGCGAGCAAAGGATGTGGGATCAGAGAACGACTTTGCTGATGATGAGCACAGCACCTTCGAGGATAACGAGAGCCGCAGAGACTCCTTATTTGTGCCCCGACGGCATGGAGAGCGACGCAACAGTAACTTAAGTCAGACCAGTAGGTCGTCCCGAATGCTGGCCGTGTTTCCAGCCAATGGGAAGATGCACAGCACTGTGGATTGCAATGGTGTGGTTTCCTTGGTTGGTGGACCTTCGGTTCCTACATCGCCTGTTGGACAGCTTCTGCCAGAG
Seq C2 exon
GGAACAACCACTGAAACTGAAATGAGAAAGAGAAGGTCAAGTTCTTTTCATGTTTCCATGGACTTTCTAGAAGATCCATCTCAAAGGCAAAGAGCAATGAGCATAGCCAGCATTTTAACAAATACAGTAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520-'9-11,'9-10,12-11
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.853 A=0.655 C2=0.244
Domain overlap (PFAM):
C1:
PF0253517=Zip=PD(45.2=78.9),PF0293211=Neur_chan_memb=FE(49.2=100),PF119333=DUF3451=PU(31.1=73.7)
A:
PF0293211=Neur_chan_memb=PD(16.8=27.6),PF119333=DUF3451=FE(51.1=100)
C2:
PF119333=DUF3451=PD(16.4=82.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCTCTCAGACAGCTCGTC
R:
TGCTGGCTATGCTCATTGCTC
Band lengths:
343-691
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development