BtaEX6020608 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021339 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr5:28300338-28331404:-
Coord C1 exon
chr5:28331129-28331404
Coord A exon
chr5:28302701-28302819
Coord C2 exon
chr5:28300338-28300427
Length
119 bp
Sequences
Splice sites
3' ss Seq
CTCTCTTTCTTTCTCCACAGACC
3' ss Score
14.53
5' ss Seq
TTCATATCC
5' ss Score
-14.87
Exon sequences
Seq C1 exon
ATGGCAGCGCGGCTGCTCGCACCACCAGGCCCTGATAGTTTCAAGCCTTTCACCCCTGAGTCACTGGCAAACATCGAGAGGCGCATCGCCGAGAGCAAGCTCAAGAAGCCACCCAAGGCCGATGGCAGTCATCGGGAGGACGATGAGGACAGCAAGCCCAAGCCAAACAGTGACCTGGAGGCAGGGAAGAGTTTGCCTTTCATCTATGGGGACATCCCACAAGGCTTGGTCGCGGTTCCCCTGGAGGACTTTGACCCATACTATTTGACGCAGAAA
Seq A exon
ACCTTTGTAGTATTAAACAGAGGGAAAACTCTCTTCAGATTTAGTGCCACGCCTGCCTTGTACATTTTAAGTCCTTTTAACCTGATAAGAAGAATAGCTATTAAAATTTTGATACATTC
Seq C2 exon
AGTATTTAGCATGATCATTATGTGCACTATTTTGACCAACTGTGTATTCATGACTTTTAGTAACCCTCCTGACTGGTCGAAGAATGTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021339-'0-2,'0-1,1-2=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=0.402 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0052026=Ion_trans=PU(0.8=6.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCAAGAAGCCACCCAAGG
R:
CGACCAGTCAGGAGGGTTACT
Band lengths:
257-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]