BtaEX0031590 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000002425 | SCN9A
Description
sodium channel, voltage gated, type IX alpha subunit [Source:HGNC Symbol;Acc:HGNC:10597]
Coordinates
chr2:30163960-30168482:+
Coord C1 exon
chr2:30163960-30164082
Coord A exon
chr2:30167845-30167882
Coord C2 exon
chr2:30168201-30168482
Length
38 bp
Sequences
Splice sites
3' ss Seq
TAAATTTCTTTCTTTTCTAGAGC
3' ss Score
10.23
5' ss Seq
CAGGTTTTT
5' ss Score
2.93
Exon sequences
Seq C1 exon
GTTTCTTTGGTTACATTAGTTGCAAACACTCTTGGCTACTCAGATCTTGGTCCCATTAAATCCCTTCGGACACTTAGAGCTTTAAGACCTCTGCGAGCTTTATCTAGATTTGAAGGAATGAGG
Seq A exon
AGCATGCAGATTTTATGACTTCACCTTACATACATCAG
Seq C2 exon
GTGGTTGTGAATGCACTCATCGGTGCAATTCCTTCTATCATGAATGTGCTACTTGTGTGTCTCATATTCTGGCTGATATTTAGCATCATGGGAGTAAATTTGTTTGCTGGCAAGTTTTATGAGTGTATCAACACCACAAATGGATTACGTTTTCCTACAAGTGAAGTGGAAAACCGTTCTGCCTGTCTTGCGCTTATGAATGTCAGTCAAAATGTGCGATGGAAAAACCTAAAAGTGAACTTTGATAATGTTGGACTTGGTTACCTGTCTCTACTTCAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002425-'28-24,'28-23,29-24
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(17.5=100)
A:
PF0052026=Ion_trans=PD(4.7=66.7)
C2:
PF0052026=Ion_trans=FE(40.6=100)
Main Inclusion Isoform:
ENSBTAT00000003146fB6166
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTACTCAGATCTTGGTCCCA
R:
TTGCACCGATGAGTGCATTCA
Band lengths:
118-156
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development