BtaEX6020614 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021339 | SCN8A
Description
sodium channel, voltage gated, type VIII alpha subunit [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr5:28270396-28281790:-
Coord C1 exon
chr5:28281584-28281790
Coord A exon
chr5:28280036-28280329
Coord C2 exon
chr5:28270396-28270758
Length
294 bp
Sequences
Splice sites
3' ss Seq
GTGAAATTTTACTTTCCTAGGCG
3' ss Score
7.29
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
Exon sequences
Seq C1 exon
ACCTTACGAGCAGCTGGGAAAACGTACATGATCTTCTTCGTCTTGGTCATCTTTGTGGGTTCTTTCTATCTGGTGAACTTGATCCTGGCTGTGGTGGCCATGGCTTATGAAGAGCAGAATCAGGCAACACTGGAGGAAGCAGAGCAGAAAGAGGCTGAATTCAAAGCAATGTTAGAGCAACTTAAGAAGCAACAGGAAGAAGCACAG
Seq A exon
GCGGCAGCGATGGCCACTTCAGCAGGAACTGTCTCAGAAGATGCCATAGAGGAAGAAGGTGAAGACGGGGCAGGCTCTCCCCGGAGCTCATCTGAAATCTCTAAACTGAGTTCCAAGAGTGCCAAGGAGAGACGGAACCGGAGAAAAAAGAGGAAGCAAAAGGAGCTCTCTGAAGGAGAGGAGAAGGGGGATCCTGAGAAGGTGTTCAAGTCAGAATCAGAAGATGGTATGAGGAGGAAGGGCTTTCGGCTCCCAGACAACAGAATAGGGAGGAAGTTTTCCATCATGAATCAG
Seq C2 exon
TCACTGCTCAGCATTCCAGGCTCCCCATTCCTCTCCCGCCACAACAGCAAGAGCAGCATCTTCAGCTTCAGGGGGCCCGGGCGGTTCCGGGACCCGGGCTCGGAGAATGAGTTTGCAGACGACGAGCACAGCACGGTGGAGGAGAGCGAGGGCCGCCGGGACTCGCTCTTCATCCCCATCCGGGCGCGCGAGCGCCGCAGCAGCTACAGTGGCTACAGCGGCTACAGCCAGGGCAGCCGCTCTTCGCGCATCTTCCCCAGCCTGCGGCGCAGCGTCAAGCGCAACAGCACAGTGGACTGCAATGGCGTGGTGTCCCTCATCGGCGGCCCCGGCTCCCACATCAGCGGGCGTCTCCTGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021339-'9-14,'9-12,10-14=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.116 A=0.908 C2=0.397
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(12.4=44.9),PF0310514=SPX=PU(19.6=55.1)
A:
PF0310514=SPX=FE(50.0=100),PF119333=DUF3451=PU(29.4=68.4)
C2:
PF0310514=SPX=PD(28.9=46.3),PF119333=DUF3451=FE(52.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGGAGGAAGCAGAGCAGAA
R:
CTGTAGCCACTGTAGCTGCTG
Band lengths:
297-591
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]