BtaEX6009353 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000002425 | SCN9A
Description
sodium channel, voltage gated, type IX alpha subunit [Source:HGNC Symbol;Acc:HGNC:10597]
Coordinates
chr2:30115767-30120429:+
Coord C1 exon
chr2:30115767-30115973
Coord A exon
chr2:30117562-30117849
Coord C2 exon
chr2:30120058-30120429
Length
288 bp
Sequences
Splice sites
3' ss Seq
GTGTTCTCTTGGTTCAACAGGCA
3' ss Score
9.6
5' ss Seq
CAGGTACCA
5' ss Score
7.88
Exon sequences
Seq C1 exon
ACCCTGCGTGCTGCTGGGAAAACCTACATGATCTTCTTTGTTGTGGTGATTTTCCTGGGATCCTTTTATCTAATAAACTTGATCCTGGCTGTTGTTGCCATGGCCTATGAAGAACAGAACCAGGCAAACATTGAAGAAGCGAGGCAGAAAGAGTTAGAATTTCAGCAGATGCTGGATCGACTTAAAAAAGAGCAAGAGGAAGCGGAG
Seq A exon
GCAATAGCATTAGCAGCAGCTGAATATACCAGCATTGGGAGAAGCAGAATAATGGGTCTGTCTGAGAGTTCTTCTGAAACATCCAAACTGAGCTCTAAAAGTGCTAAAGAAAGAAGAAACAGGAGAAGGAAAAAGAACCAAAAGAAACTCTCCAGTGGGGAAGAAAAGGGAGATGATGAGAAACTGTCCAAATCGGAATCCGAGGAGAGCATCAGGAGAAAAAGTTTCCACCTTGGTGTTGAAGGTCATAGGCGAGCACGTGAAAAAAGATTGTCTACCCCTAACCAG
Seq C2 exon
TCACCACTGAGCATCCGTGGCTCCTTGTTTTCTGCAAGGCGGAGCAGCAGAACAAGTCTTTTCAGCTTCAAAGGTCGAGGAAGAGATATTGGATCTGAGACTGAATTTGCCGACGACGAGCACAGCATCTTTGGTGACAACGAGAGCAGAAGGGGCTCCCTGTTTGTGCCCCACAGACCTCGGGAGCGGCGCAGCAGTAACATCAGCCAAGCCAGTAGGTCTCCCCCAGTGCTGCCAGTGAACGGGAAGATGCACAGCGCTGTCGACTGCAATGGCGTGGTCTCCTTGGTGGATGGACCCTCCGCCCTCATGCTACCCAATGGACAGCTCCTGCCAGAGGTGATAATAGATAAGGCAACTTCTGATGACAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002425-'11-11,'11-10,12-11=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=0.771 C2=0.581
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(12.6=44.9),PF0253517=Zip=FE(39.3=100)
A:
PF0253517=Zip=PD(48.0=86.5),PF119333=DUF3451=PU(30.5=74.0)
C2:
PF119333=DUF3451=FE(52.8=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATTGAAGAAGCGAGGCAGA
R:
GGCTTGGCTGATGTTACTGCT
Band lengths:
293-581
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]