BtaEX6020610 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021339 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr5:28297742-28300427:-
Coord C1 exon
chr5:28300338-28300427
Coord A exon
chr5:28299383-28299511
Coord C2 exon
chr5:28297742-28297833
Length
129 bp
Sequences
Splice sites
3' ss Seq
GCTATCCATTTCTTCAACAGGTA
3' ss Score
9.28
5' ss Seq
GGCGTAAGT
5' ss Score
9.39
Exon sequences
Seq C1 exon
AGTATTTAGCATGATCATTATGTGCACTATTTTGACCAACTGTGTATTCATGACTTTTAGTAACCCTCCTGACTGGTCGAAGAATGTGGA
Seq A exon
GTACACGTTCACAGGGATTTATACATTTGAATCACTAGTGAAAATCATTGCAAGAGGTTTCTGCATAGATGGCTTTACCTTTTTACGGGATCCATGGAACTGGTTGGATTTCAGTGTCATCATGATGGC
Seq C2 exon
GTATATAACAGAGTTTGTAAACCTAGGCAATGTTTCAGCTCTACGCACTTTCAGGGTTCTGAGGGCTTTGAAAACTATTTCGGTAATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021339-'2-5,'2-3,3-5=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=PU(0.8=6.5)
A:
PF0052026=Ion_trans=FE(17.1=100)
C2:
PF0052026=Ion_trans=FE(12.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TTTAGCATGATCATTATGTGCACT
R:
CTGGGATTACCGAAATAGTTTTCA
Band lengths:
178-307
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]