BtaEX6020622 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021339 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr5:28221235-28229471:-
Coord C1 exon
chr5:28229349-28229471
Coord A exon
chr5:28223061-28223345
Coord C2 exon
chr5:28221235-28221288
Length
285 bp
Sequences
Splice sites
3' ss Seq
ACCTCCCCCTTCCAACGCAGGTG
3' ss Score
10.04
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
Exon sequences
Seq C1 exon
GTCTCTTTAGTCAGCCTTATAGCTAATGCCCTGGGCTACTCGGAACTAGGTGCCATAAAGTCCCTTAGGACCCTAAGAGCTTTGAGACCCTTAAGAGCCTTATCACGATTTGAAGGGATGAGG
Seq A exon
GTGGTGGTGAATGCCTTGGTGGGCGCCATCCCCTCCATCATGAATGTGCTGCTGGTGTGTCTCATCTTCTGGCTGATTTTCAGCATCATGGGAGTTAACCTGTTTGCGGGAAAGTACCACTATTGCTTTAATGAGTCTTCTGAGATCCGATTTGAAATTGAAGATGTCAACAATAAAACAGAGTGCGAAAAGCTCATGGAGGGGAACAACACAGAAATCAGATGGAAGAACGTGAAGATCAACTTTGACAATGTTGGGGCAGGATATCTGGCGCTTCTTCAAGTG
Seq C2 exon
GCAACCTTCAAAGGCTGGATGGACATCATGTATGCAGCCGTAGATTCCCGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021339-'23-27,'23-26,24-27=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(17.4=100)
A:
PF0052026=Ion_trans=FE(40.9=100)
C2:
PF0052026=Ion_trans=FE(7.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TTTAGTCAGCCTTATAGCTAATGCCC
R:
CTTTCGGGAATCTACGGCTGC
Band lengths:
172-457
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]