BtaEX6009412 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000038180 | SCN2A
Description
sodium channel, voltage gated, type II alpha subunit [Source:HGNC Symbol;Acc:HGNC:10588]
Coordinates
chr2:31024907-31032332:-
Coord C1 exon
chr2:31032200-31032332
Coord A exon
chr2:31027735-31027973
Coord C2 exon
chr2:31024907-31025080
Length
239 bp
Sequences
Splice sites
3' ss Seq
AGTATTCTGTTTTCTTCCAGAAC
3' ss Score
9.06
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
Exon sequences
Seq C1 exon
GGCACAACTACTGAAACAGAAATAAGAAAGAGACGGTCCAGTTCTTATCATGTTTCCATGGATCTTTTGGAAGATCCTACAGCAAGGCAAAGAGCAATGAGTATGGCTAGTATTTTGACCAACACCATGGAAG
Seq A exon
AACTTGAAGAATCCAGACAGAAATGCCCACCGTGCTGGTATAAATTTGCTAACATGTGTTTGATTTGGGACTGCTGTAAGCCATGGTTAAAGGTGAAACATGTTGTCAACCTGGTTGTGATGGACCCTTTTGTTGACCTGGCCATCACCATCTGCATTGTCTTAAACACCCTCTTCATGGCCATGGAGCACTATCCCATGACGGAGCAGTTTAGCAGTGTGCTGTCAGTTGGGAACCTG
Seq C2 exon
GTCTTCACTGGGATCTTCACAGCAGAAATGTTTCTCAAGATAATTGCCATGGATCCATATTATTACTTTCAAGAAGGCTGGAATATTTTTGATGGTTTAATTGTGAGCCTTAGTTTAATGGAACTTGGTTTGGCAAATGTGGAAGGACTGTCAGTTCTCCGATCATTTCGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038180-'15-16,'15-15,17-16=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=0.244 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF119333=DUF3451=PD(16.5=82.2)
A:
PF0052026=Ion_trans=PU(1.6=3.8)
C2:
PF0052026=Ion_trans=FE(30.0=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACAACTACTGAAACAGAAA
R:
CGGAGAACTGACAGTCCTTCC
Band lengths:
294-533
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]