BtaEX6089654 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000004770 | SCN4A
Description
sodium channel, voltage gated, type IV alpha subunit [Source:HGNC Symbol;Acc:HGNC:10591]
Coordinates
chr19:48796648-48798298:-
Coord C1 exon
chr19:48798161-48798298
Coord A exon
chr19:48797532-48797636
Coord C2 exon
chr19:48796648-48796918
Length
105 bp
Sequences
Splice sites
3' ss Seq
CGGGCCCCATCCCATTGTACTTT
3' ss Score
-1.03
5' ss Seq
CAGGTACCA
5' ss Score
7.88
Exon sequences
Seq C1 exon
AAGGAAGAGCAGCCACAGTATGAGGTGAACCTCTACATGTACCTCTATTTCGTCATCTTCATCATCTTCGGCTCCTTCTTCACCCTCAACCTCTTCATTGGCGTCATCATCGACAACTTCAACCAGCAGAAGAAGAAG
Seq A exon
TTTGGAGGGAAAGACATCTTCATGACAGAGGAACAGAAGAAATACTATAACGCCATGAAGAAGCTTGGCTCCAAGAAGCCTCAGAAGCCAATTCCCCGGCCCCAG
Seq C2 exon
AACAAGGTCCAGGGCATGGTGTACGACCTGGTGACCAAGCAGGCGTTCGACATCACCATCATGATCCTCATTTGCCTCAACATGGTCACCATGATGGTGGAGACGGACGACCAGAGCCAGCTCAAGGTGGACATCCTGTACAACATCAACATGGTCTTCATCATCATCTTCACGGGCGAGTGCGTGCTCAAGATGCTGGCCCTGCGCCAGTACTACTTCACCGTCGGCTGGAATATCTTCGACTTTGTGGTCGTCATCCTGTCCATTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004770-'23-25,'23-24,24-25=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=0.057 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(15.4=76.1)
A:
NO
C2:
PF0052026=Ion_trans=PU(20.4=47.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCTTCTTCACCCTCAACC
R:
CACTCGCCCGTGAAGATGATG
Band lengths:
250-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]