BtaEX6093466 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000017174 | SCN11A
Description
sodium channel, voltage gated, type XI alpha subunit [Source:HGNC Symbol;Acc:HGNC:10583]
Coordinates
chr22:12351959-12356183:-
Coord C1 exon
chr22:12355917-12356183
Coord A exon
chr22:12353016-12353134
Coord C2 exon
chr22:12351959-12352060
Length
119 bp
Sequences
Splice sites
3' ss Seq
CCTTTTTTTTTTTTTGGCAGACA
3' ss Score
9.31
5' ss Seq
TTCATATCC
5' ss Score
-14.87
Exon sequences
Seq C1 exon
ATGGATGACAGGTGCTACCCAGTGATCTTTCCAGATGGGAGGAATTTCCGCCCCTTCACTCCTGACTCTTTGGCTGCAATCAAGAAGCGGATCGCCATCCAAAAGGAGAAAAATAAGTCCAAAGATCGGAAAGCAGCAGAATGCGAGCCTCGACCTCAACTTGACCTAAAGGTCTCCAGAAAGTTGCCCAAGCTTTATGGTGACATTCCCCGTGACCTGATAGCAAAGCCCCTAGAAGACCTGGACCCATTCTACCACAATCATAAG
Seq A exon
ACATTTATGGTGTTGAACAAAAAGAGAACAATCTACCGCTTCAGCGCCAAACGTGCCTTGTTCATTTTGGGGCCTTTCAATTCAATCAGAAGTTTGGCCATTAGAATCTCAGTCCATTC
Seq C2 exon
GTTGTTCAGCATGTTCATCATCTGTACTGTCATCATCAACTGCGTGTTCATGGCCTTGGCTCATCAGAAGAGCAGCATTGATGTGAAAACTGACCATGCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017174-'0-1,'0-0,1-1=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.090 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0052026=Ion_trans=PU(0.8=5.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCAATCAAGAAGCGGATCG
R:
ATGAGCCAAGGCCATGAACAC
Band lengths:
258-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]