BtaEX6009371 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30354646-30356272:+
Coord C1 exon
chr2:30354646-30354709
Coord A exon
chr2:30355273-30355414
Coord C2 exon
chr2:30356066-30356272
Length
142 bp
Sequences
Splice sites
3' ss Seq
TTCTTTTGCCGCATTTACAGCCA
3' ss Score
6.22
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
Exon sequences
Seq C1 exon
GATATCATTATTTTCTGGAGGGTTTTTCAGATGCACTACTGTGTGGCAATAGCTCAGATGCGGG
Seq A exon
CCAATGTCCAGAAGGATACATGTGTGTGAAAGCTGGTAGAAATCCCAATTATGGCTACACAAGCTTTGATACCTTCAGTTGGGCTTTTTTGTCACTGTTTCGACTGATGACTCAGGACTTCTGGGAAAATCTTTACCAGCTG
Seq C2 exon
ACATTACGTGCTGCTGGAAAAACATACATGATATTTTTTGTGCTGGTCATTTTCTTGGGCTCCTTCTATCTAATAAATTTGATCCTGGCTGTGGTGGCCATGGCCTATGAAGAACAGAATCAGGCCACCTTAGAAGAGGCGGAACAGAAAGAGGCTGAATTTCAGCAGATGCTCGAACAACTTAAAAAGCAACAGGAGGCAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520-'6-7,'6-6,7-7=AN
Average complexity
A_S
Mappability confidence:
88%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.145
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(7.9=100)
A:
PF0052026=Ion_trans=FE(17.6=100),PF0253517=Zip=PU(12.0=41.7)
C2:
PF0052026=Ion_trans=PD(11.6=44.9),PF0253517=Zip=FE(41.0=100),PF0293211=Neur_chan_memb=PU(32.5=89.9)
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:
TCAGATGCACTACTGTGTGGC
R:
AGCTGCCTCCTGTTGCTTTTT
Band lengths:
242-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]