BtaEX6093486 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000017174 | SCN11A
Description
sodium channel, voltage gated, type XI alpha subunit [Source:HGNC Symbol;Acc:HGNC:10583]
Coordinates
chr22:12296263-12298714:-
Coord C1 exon
chr22:12298445-12298714
Coord A exon
chr22:12297718-12297771
Coord C2 exon
chr22:12296263-12296404
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTCTCTTCTTTCATTGCAGGCA
3' ss Score
11.92
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
Exon sequences
Seq C1 exon
GTGGTAGTTTATGCTCTCATAGGTGCCATACCTGCTATTCTGAATGTTTTGCTTGTCTGCCTCATTTTCTGGCTCATATTTTGTATCCTGGGAGTAAGTCTGTTTTCTGGAAGATTTGGAAGATGTGTTAATGCAACAGATGTAAAATCAGTTATAGATTATAACATTGTTGCAAACCGTAATCAATGTGAAAGTGGACATTTCTATTGGGACACCCCGGATGTCAACTTTGACAACGTGTTAATGGCTTACCTTGCGCTACTGCAAGTG
Seq A exon
GCAACATTTAAGGGCTGGATGGATATTATGTATGCAGCTGTTGATTCCACAGAG
Seq C2 exon
GAAGGACAACAGCCACAGTTTGAGGCACGTTCTTCCATGTACCTTTACTTCGTAGTTTTTATCATCTTTGGCTCATTCTTCACTCTGAATCTCTTTACTGGTGTTATTATTGACAACTTCAACCAACAGCAGAAAAAGATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017174-'21-22,'21-21,22-22=AN
Average complexity
A_C1
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(40.8=100)
A:
PF0052026=Ion_trans=FE(7.8=100)
C2:
PF0052026=Ion_trans=PD(16.1=72.9)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTGCAAACCGTAATCAATGTGA
R:
AGAACGTGCCTCAAACTGTGG
Band lengths:
136-190
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]