BtaEX6009360 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018520 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr2:30406249-30410387:+
Coord C1 exon
chr2:30406249-30406302
Coord A exon
chr2:30408291-30408428
Coord C2 exon
chr2:30410283-30410387
Length
138 bp
Sequences
Splice sites
3' ss Seq
AAAGTATTCTCCTTTGGTAGGTG
3' ss Score
5.53
5' ss Seq
AAGATAAGT
5' ss Score
2.82
Exon sequences
Seq C1 exon
GCCACATTTAAGGGATGGATGGATATAATGTATGCAGCAGTTGATTCCAGAAAT
Seq A exon
GTGGAACTCCAGCCTAAGTATGAGGAAAGTCTATACATGTATCTTTACTTTGTTATTTTCATCATCTTTGGGTCCTTCTTCACCTTGAACCTGTTTATTGGTGTCATCATAGATAATTTCAACCAGCAAAAAAAGAAG
Seq C2 exon
TTTGGAGGTCAAGACATCTTTATGACAGAAGAACAGAAGAAATACTATAATGCAATGAAAAAATTAGGATCAAAAAAGCCACAAAAGCCTATACCTCGACCAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018520-'26-25,'26-24,27-25=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(7.4=100)
A:
PF0052026=Ion_trans=PD(15.3=76.1)
C2:
NO
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:
GCCACATTTAAGGGATGGATGGA
R:
TCCTGGTCGAGGTATAGGCTT
Band lengths:
159-297
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]