BtaEX0031593 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000002425 | SCN9A
Description
sodium channel, voltage gated, type IX alpha subunit [Source:HGNC Symbol;Acc:HGNC:10597]
Coordinates
chr2:30158681-30164082:+
Coord C1 exon
chr2:30158681-30158835
Coord A exon
chr2:30161141-30161314
Coord C2 exon
chr2:30163960-30164082
Length
174 bp
Sequences
Splice sites
3' ss Seq
TTCAAATGTTATTTTCACAGGCT
3' ss Score
7.68
5' ss Seq
GATGTAGGT
5' ss Score
4.9
Exon sequences
Seq C1 exon
GTTGCGTACAGAGGTTCCCATGCTGCCAAGTTAACATAGAATCAGGGAAAGGAAAAATCTGGTGGAACATCAGGAAAACGTGCTTCAGGATAGTTGAGCACAGTTGGTTTGAAAGCTTCATTGTTCTCATGATCTTGCTCAGCAGTGGTGCTCTG
Seq A exon
GCTTTTGAAGATATATATATTGAAAAGAAAAAGAACATTAAGATTATCCTGGAGTATGCTGACAAGATATTCACGTATATCTTCATTCTAGAAATGCTTCTAAAATGGGTAGCATATGGTTACAAAACCTATTTCACCAATGCCTGGTGTTGGCTGGATTTCTTAATTGTCGAT
Seq C2 exon
GTTTCTTTGGTTACATTAGTTGCAAACACTCTTGGCTACTCAGATCTTGGTCCCATTAAATCCCTTCGGACACTTAGAGCTTTAAGACCTCTGCGAGCTTTATCTAGATTTGAAGGAATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002425_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF065128=Na_trans_assoc=PD(19.9=84.6)
A:
PF0052026=Ion_trans=PU(17.0=67.2)
C2:
PF0052026=Ion_trans=FE(17.5=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:
CGTACAGAGGTTCCCATGCTG
R:
GAGGTCTTAAAGCTCTAAGTGTCCG
Band lengths:
242-416
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development