BtaEX6009370 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30356066-30360269:+
Coord C1 exon
chr2:30356066-30356272
Coord A exon
chr2:30358419-30358703
Coord C2 exon
chr2:30359922-30360269
Length
285 bp
Sequences
Splice sites
3' ss Seq
ACCATGTCTCCTCAATGTAGCAG
3' ss Score
6.75
5' ss Seq
CAGGTATGG
5' ss Score
9.99
Exon sequences
Seq C1 exon
ACATTACGTGCTGCTGGAAAAACATACATGATATTTTTTGTGCTGGTCATTTTCTTGGGCTCCTTCTATCTAATAAATTTGATCCTGGCTGTGGTGGCCATGGCCTATGAAGAACAGAATCAGGCCACCTTAGAAGAGGCGGAACAGAAAGAGGCTGAATTTCAGCAGATGCTCGAACAACTTAAAAAGCAACAGGAGGCAGCTCAG
Seq A exon
CAGGCAGCAGCTGTAACTGCCTCAGAGCATTCCAGAGAACCTAGTGCAGCAGGCAGGCTCTCAGACAGCTCGTCTGAAGCCTCCAAGTTGAGTTCCAAGAGTGCAAAGGAAAGAAGAAATCGGAGAAAGAAAAGAAAACAGAAAGAGCAATCTGGTGGAGAAGAGAAAGATGATGATGAATTCCAGAAATCTGAATCTGAAGACAGCATCAGGAGGAAAGGGTTTCGCTTCTCCATAGAAGGGAATCGGTTGACATACGAAAAGAGGTACTCCTCCCCACACCAG
Seq C2 exon
TCTTTGTTGAGCATCCGTGGCTCCTTATTTTCTCCAAGGCGAAATAGCAGAACAAGCCTTTTCAGCTTCAGAGGGCGAGCAAAGGATGTGGGATCAGAGAACGACTTTGCTGATGATGAGCACAGCACCTTCGAGGATAACGAGAGCCGCAGAGACTCCTTATTTGTGCCCCGACGGCATGGAGAGCGACGCAACAGTAACTTAAGTCAGACCAGTAGGTCGTCCCGAATGCTGGCCGTGTTTCCAGCCAATGGGAAGATGCACAGCACTGTGGATTGCAATGGTGTGGTTTCCTTGGTTGGTGGACCTTCGGTTCCTACATCGCCTGTTGGACAGCTTCTGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520-'8-10,'8-8,9-10=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.145 A=0.853 C2=0.655
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(11.6=44.9),PF0253517=Zip=FE(41.0=100),PF0293211=Neur_chan_memb=PU(32.5=89.9)
A:
PF0253517=Zip=PD(45.2=78.9),PF0293211=Neur_chan_memb=FE(49.2=100),PF119333=DUF3451=PU(31.1=73.7)
C2:
PF0293211=Neur_chan_memb=PD(16.8=27.6),PF119333=DUF3451=FE(51.1=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAAGCAACAGGAGGCAGCT
R:
CAGTGCTGTGCATCTTCCCAT
Band lengths:
295-580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]