BtaEX6009351 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000002425 | SCN9A
Description
sodium channel, voltage gated, type IX alpha subunit [Source:HGNC Symbol;Acc:HGNC:10597]
Coordinates
chr2:30120058-30125072:+
Coord C1 exon
chr2:30120058-30120429
Coord A exon
chr2:30123227-30123356
Coord C2 exon
chr2:30124834-30125072
Length
130 bp
Sequences
Splice sites
3' ss Seq
ATCATCTTTTTTTTTTTCAGGGT
3' ss Score
11.86
5' ss Seq
AAGGTATGG
5' ss Score
9.26
Exon sequences
Seq C1 exon
TCACCACTGAGCATCCGTGGCTCCTTGTTTTCTGCAAGGCGGAGCAGCAGAACAAGTCTTTTCAGCTTCAAAGGTCGAGGAAGAGATATTGGATCTGAGACTGAATTTGCCGACGACGAGCACAGCATCTTTGGTGACAACGAGAGCAGAAGGGGCTCCCTGTTTGTGCCCCACAGACCTCGGGAGCGGCGCAGCAGTAACATCAGCCAAGCCAGTAGGTCTCCCCCAGTGCTGCCAGTGAACGGGAAGATGCACAGCGCTGTCGACTGCAATGGCGTGGTCTCCTTGGTGGATGGACCCTCCGCCCTCATGCTACCCAATGGACAGCTCCTGCCAGAGGTGATAATAGATAAGGCAACTTCTGATGACAGC
Seq A exon
GGTACAACCAATCAAATACACAAGAAAAGACGTCACAGTTCTTACCTCCTTTCTGAGGATATGTTGAATGACCCCAATCTCAGACAAAGGGCAATGAGTAGGGCAAGCATATTAACAAACACTGTAGAAG
Seq C2 exon
AACTTGAGGAGTCCAGACAGAAATGTCCACCTTGGTGGTACAGATTTGCACACACATTCTTGATCTGGAATTGCTCTCCATATTGGATAAAATTCAAAAAATTTATCTATTTTATTGTAATGGATCCTTTTGTAGATCTTGCTATTACCATTTGCATAGTTTTAAACACATTGTTCATGGCTATGGAACATCACCCAATGACTGAGGAATTCAAAAATGTGCTCGTTGTGGGAAATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002425-'14-13,'14-12,16-13=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.581 A=0.136 C2=0.000
Domain overlap (PFAM):
C1:
PF119333=DUF3451=FE(52.8=100)
A:
PF119333=DUF3451=PD(15.5=81.8)
C2:
PF0052026=Ion_trans=PU(1.6=3.8)
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:
AGCTCCTGCCAGAGGTGATAA
R:
TGGGTGATGTTCCATAGCCATG
Band lengths:
244-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]