BtaEX6009410 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000038180 | SCN2A
Description
sodium channel, voltage gated, type II alpha subunit [Source:HGNC Symbol;Acc:HGNC:10588]
Coordinates
chr2:31032200-31042339:-
Coord C1 exon
chr2:31042052-31042339
Coord A exon
chr2:31036093-31036440
Coord C2 exon
chr2:31032200-31032332
Length
348 bp
Sequences
Splice sites
3' ss Seq
TCCTTCCTTGTTGTTGATAGTCT
3' ss Score
5.77
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
Exon sequences
Seq C1 exon
GCAGCAGCTGCAGCAGCTTCGGCTGAATCAAGAGAGTTCAGCGGTGCTGGTGGGATCGGGGTTTTCTCAGAGAGTTCTTCAGTAGCATCAAAATTGAGCTCCAAGAGTGAAAAAGAGCTGAAAAACAGAAGGAAGAAGAAGAAACAGAAAGAACAGTCTGGAGAAGAAGAAAAGGAAGATGGGGTCCGCAAATCTGAATCTGAAGACAGCATAAGAAGAAAAGGTTTCCGGTTTTCTTTGGAAGGAAGCAGGCTGACATATGAAAAGAGGTTTTCCTCTCCACATCAG
Seq A exon
TCTTTACTGAGCATCCGTGGCTCCCTGTTCTCTCCAAGACGCAACAGTAGGGCGAGCCTTTTCAGCTTCAGAGGCCGAGCCAAGGATATTGGCTCTGAGAATGATTTTGCGGATGATGAGCACAGCACCTTTGAGGACAATGACAGCAGAAGAGACTCTCTGTTTGTGCCGCACAGACATGGGGAGCGGCGCCACAGCAACGTCAGCCAGGCCAGCCGTGCCTCCAGGGTGCTCCCCATTCTGCCCATGAACGGGAAGATGCACAGCGCTGTGGACTGCAACGGAGTGGTCTCCCTGGTTGGGGGCCCTTCTGCCCTCACATCTCCTGCTGGGCAGCTCCTACCAGAG
Seq C2 exon
GGCACAACTACTGAAACAGAAATAAGAAAGAGACGGTCCAGTTCTTATCATGTTTCCATGGATCTTTTGGAAGATCCTACAGCAAGGCAAAGAGCAATGAGTATGGCTAGTATTTTGACCAACACCATGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038180-'13-13,'13-12,14-13=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.375 A=0.560 C2=0.244
Domain overlap (PFAM):
C1:
PF119333=DUF3451=PU(30.8=71.9)
A:
PF119333=DUF3451=FE(51.3=100)
C2:
PF119333=DUF3451=PD(16.5=82.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAAGAGAGTTCAGCGGTGC
R:
TGCTCTTTGCCTTGCTGTAGG
Band lengths:
358-706
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]