BtaEX6009341 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000002425 | SCN9A
Description
sodium channel, voltage gated, type IX alpha subunit [Source:HGNC Symbol;Acc:HGNC:10597]
Coordinates
chr2:30178629-30184706:+
Coord C1 exon
chr2:30178629-30178733
Coord A exon
chr2:30180085-30180355
Coord C2 exon
chr2:30183237-30184706
Length
271 bp
Sequences
Splice sites
3' ss Seq
TCATTTTTGTTTCTTTGCAGAAC
3' ss Score
12.16
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
Exon sequences
Seq C1 exon
CTTGGAGGTCAAGATATCTTTATGACAGAAGAACAGAAGAAATATTATAATGCAATGAAAAAGCTGGGATCCAAGAAACCACAAAAGCCAATACCTCGGCCAGGG
Seq A exon
AACAAATTCCAAGGATGTATCTTTGACCTAGTAACAAACCAAGCTTTTGATATAGCCATCATGGTTCTGATCTGCCTCAACATGGTAACCATGATGGTGGAAAAAGAGGGACAAAGTGACTACGTGACTGAAGTTTTAAATTGGATCAATGTGGTTTTTATTATCCTGTTCTCTGGAGAATGCGTGCTGAAACTGATCTCCCTCAGATGCTACTACTTCACTGTAGGCTGGAACATCTTTGATTTTGTGGTTGTAATTCTCTCCATTGTAG
Seq C2 exon
GTATGTTTCTGGCAGATTTGATAGAAAGGTATTTTGTGTCCCCTACCCTATTCCGAGTGATCCGTCTTGCCAGGATTGGCCGAATCCTGCGTCTGATCAAAGGGGCCAAGGGGATCCGCACGCTGCTCTTTGCTTTGATGATGTCCCTTCCTGCGCTGTTTAACATCGGCCTCCTGCTCTTCCTGGTCATGTTCATCTATGCCATCTTTGGAATGTCCAATTTTGCCTATGTTAAAAAGGAAGCTGGAATTAATGACATGTTCAACTTTGAGACCTTCGCCAACAGCATGATCTGCCTGTTCCAGATTACCACCTCTGCTGGCTGGGATGGATTGCTGGCACCTATCCTCAATAGTAAACCACCGGACTGTGACCCCAAAAAAGTTCATCCTGGAAGCTCAGTTGAAGGAGACTGTGGGAACCCATCTGTCGGGATATTCTATTTTGTCAGTTACATCATCATATCATTTCTGGTCGTGGTGAACATGTACATTGCTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002425-'34-30,'34-29,36-30=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=0.000 C2=0.249
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(20.4=47.3)
C2:
PF0052026=Ion_trans=PD(79.1=42.0),PF0061222=IQ=WD(100=5.0)
Main Skipping Isoform:
ENSBTAT00000003146fB6167
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAGCCAATACCTCGGCCAG
R:
TGTTGGCGAAGGTCTCAAAGT
Band lengths:
308-579
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]