BtaEX6020621 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021339 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr5:28229349-28235794:-
Coord C1 exon
chr5:28235640-28235794
Coord A exon
chr5:28234686-28234859
Coord C2 exon
chr5:28229349-28229471
Length
174 bp
Sequences
Splice sites
3' ss Seq
AGCTGCTGCCTCTCTTCCAGGCC
3' ss Score
8.89
5' ss Seq
GCTGTACGT
5' ss Score
5.68
Exon sequences
Seq C1 exon
GTTGTGTCCAGAGATTTAAGTGCTGCCAGGTCAACATTGAGGAGGGACTGGGCAAGTCTTGGTGGATCCTGCGGAAAACCTGCTTCCTCATCGTGGAGCACAACTGGTTCGAGACCTTCATCATCTTCATGATTCTACTCAGCAGTGGTGCCCTG
Seq A exon
GCCTTCGAGGACATCTACATCGAGCAGAGGAAGACCATCCGTACCATCCTGGAGTATGCTGATAAAGTCTTCACCTACATCTTCATCCTGGAGATGTTGCTCAAGTGGACAGCCTACGGCTTCGTCAAGTTCTTCACCAATGCCTGGTGCTGGCTGGACTTCCTCATCGTGGCT
Seq C2 exon
GTCTCTTTAGTCAGCCTTATAGCTAATGCCCTGGGCTACTCGGAACTAGGTGCCATAAAGTCCCTTAGGACCCTAAGAGCTTTGAGACCCTTAAGAGCCTTATCACGATTTGAAGGGATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021339-'20-25,'20-23,21-25=AN
Average complexity
A_C2
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:
PF065128=Na_trans_assoc=PD(20.2=84.6)
A:
PF0052026=Ion_trans=PU(17.0=67.2)
C2:
PF0052026=Ion_trans=FE(17.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAGGTCAACATTGAGGAGG
R:
TCCCTTCAAATCGTGATAAGGCT
Band lengths:
249-423
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]