BtaEX6009409 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000038180 | SCN2A
Description
sodium channel, voltage gated, type II alpha subunit [Source:HGNC Symbol;Acc:HGNC:10588]
Coordinates
chr2:31036093-31044641:-
Coord C1 exon
chr2:31044435-31044641
Coord A exon
chr2:31042052-31042339
Coord C2 exon
chr2:31036093-31036440
Length
288 bp
Sequences
Splice sites
3' ss Seq
TTTCCTTTGGACCCTTCTAGGCA
3' ss Score
8.4
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
Exon sequences
Seq C1 exon
ACACTACGTGCTGCTGGGAAAACATACATGATATTTTTTGTGCTGGTCATTTTCTTGGGCTCCTTCTATCTAATAAATTTGATCCTGGCTGTGGTGGCCATGGCCTATGAAGAACAGAATCAGGCAACGCTGGAAGAGGCTGAACAGAAAGAAGCTGAATTTCAGCAGATGCTTGAACAGCTTAAAAAGCAACAAGAAGAAGCTCAG
Seq A exon
GCAGCAGCTGCAGCAGCTTCGGCTGAATCAAGAGAGTTCAGCGGTGCTGGTGGGATCGGGGTTTTCTCAGAGAGTTCTTCAGTAGCATCAAAATTGAGCTCCAAGAGTGAAAAAGAGCTGAAAAACAGAAGGAAGAAGAAGAAACAGAAAGAACAGTCTGGAGAAGAAGAAAAGGAAGATGGGGTCCGCAAATCTGAATCTGAAGACAGCATAAGAAGAAAAGGTTTCCGGTTTTCTTTGGAAGGAAGCAGGCTGACATATGAAAAGAGGTTTTCCTCTCCACATCAG
Seq C2 exon
TCTTTACTGAGCATCCGTGGCTCCCTGTTCTCTCCAAGACGCAACAGTAGGGCGAGCCTTTTCAGCTTCAGAGGCCGAGCCAAGGATATTGGCTCTGAGAATGATTTTGCGGATGATGAGCACAGCACCTTTGAGGACAATGACAGCAGAAGAGACTCTCTGTTTGTGCCGCACAGACATGGGGAGCGGCGCCACAGCAACGTCAGCCAGGCCAGCCGTGCCTCCAGGGTGCTCCCCATTCTGCCCATGAACGGGAAGATGCACAGCGCTGTGGACTGCAACGGAGTGGTCTCCCTGGTTGGGGGCCCTTCTGCCCTCACATCTCCTGCTGGGCAGCTCCTACCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038180-'12-12,'12-11,13-12=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.058 A=0.375 C2=0.560
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(11.6=44.9)
A:
PF119333=DUF3451=PU(30.8=71.9)
C2:
PF119333=DUF3451=FE(51.3=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGGTCATTTTCTTGGGCT
R:
CCTCAAAGGTGCTGTGCTCAT
Band lengths:
303-591
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]