BtaEX6020613 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021339 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr5:28280036-28283451:-
Coord C1 exon
chr5:28283310-28283451
Coord A exon
chr5:28281584-28281790
Coord C2 exon
chr5:28280036-28280329
Length
207 bp
Sequences
Splice sites
3' ss Seq
AGTGGTTTTTGTCTTTACAGACC
3' ss Score
9.09
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
Exon sequences
Seq C1 exon
GCAATGTCCAGAGGGATACCAGTGTATGAAGGCAGGAAGGAACCCCAACTATGGTTACACGAGCTTTGACACTTTCAGCTGGGCCTTCTTGGCATTATTTCGCCTTATGACCCAGGACTACTGGGAAAACTTGTATCAATTA
Seq A exon
ACCTTACGAGCAGCTGGGAAAACGTACATGATCTTCTTCGTCTTGGTCATCTTTGTGGGTTCTTTCTATCTGGTGAACTTGATCCTGGCTGTGGTGGCCATGGCTTATGAAGAGCAGAATCAGGCAACACTGGAGGAAGCAGAGCAGAAAGAGGCTGAATTCAAAGCAATGTTAGAGCAACTTAAGAAGCAACAGGAAGAAGCACAG
Seq C2 exon
GCGGCAGCGATGGCCACTTCAGCAGGAACTGTCTCAGAAGATGCCATAGAGGAAGAAGGTGAAGACGGGGCAGGCTCTCCCCGGAGCTCATCTGAAATCTCTAAACTGAGTTCCAAGAGTGCCAAGGAGAGACGGAACCGGAGAAAAAAGAGGAAGCAAAAGGAGCTCTCTGAAGGAGAGGAGAAGGGGGATCCTGAGAAGGTGTTCAAGTCAGAATCAGAAGATGGTATGAGGAGGAAGGGCTTTCGGCTCCCAGACAACAGAATAGGGAGGAAGTTTTCCATCATGAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021339-'8-12,'8-11,9-12=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.116 C2=0.908
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(18.7=100)
A:
PF0052026=Ion_trans=PD(12.4=44.9),PF0310514=SPX=PU(19.6=55.1)
C2:
PF0310514=SPX=FE(50.0=100),PF119333=DUF3451=PU(29.4=68.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TTCGCCTTATGACCCAGGACT
R:
CTGTTGTCTGGGAGCCGAAAG
Band lengths:
307-514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]