BtaEX6093473 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000017174 | SCN11A
Description
sodium channel, voltage gated, type XI alpha subunit [Source:HGNC Symbol;Acc:HGNC:10583]
Coordinates
chr22:12332871-12334858:-
Coord C1 exon
chr22:12334717-12334858
Coord A exon
chr22:12333941-12334138
Coord C2 exon
chr22:12332871-12333044
Length
198 bp
Sequences
Splice sites
3' ss Seq
GTGTGTTCTGTCCCTTGCAGACT
3' ss Score
12.24
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
Exon sequences
Seq C1 exon
GGCTTGTCCTGAACAATATGAATGCAGAGATAGCCACAAAAATCCTGACTATAACTACACAAATTTTGACAACTTTGGCTGGTCTTTTCTTGCCATGTTCCGGCTTATGACCCAAGATTCCTGGGAGAAGCTTTATCGACAG
Seq A exon
ACTGTGCGTACCTCAGGGCTCATCTCGGTCCTCTTCTTTGTGGTGGTCATCTTCCTGGGCTCTTTCTACTTGGTTAACTTAACCCTGGCTGTTGTCACCATGACTTATGAGGAACAGAACAAGAATGTAGCTGCTGAAACAGAAGCCAAGGAGAAGATGTTTCAGGAAGCCCAGCAGCTGTTGAAGGAGGAGAAGGAG
Seq C2 exon
GCTCTGGTTGCCATGGGAATTGACAGAAGTTCACTTAATTCCCTTGAAGCATCATCTTTTTCCCCAAAGAAGAGAAAGCTATTTGGTAGTAAGAAAAGAAAATCCTTCTTTTTAAGAAAGTCTGGGAAAGACCAGATTCCAGGATCAGATTCTGATGAAGATTCTTCAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017174-'8-8,'8-7,9-8=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=0.091 C2=0.207
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(19.5=100)
A:
PF0052026=Ion_trans=PD(12.9=47.0)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
AGATAGCCACAAAAATCCTGACT
R:
CCTGGAATCTGGTCTTTCCCA
Band lengths:
258-456
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]