BtaEX6009407 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000038180 | SCN2A
Description
sodium channel, voltage gated, type II alpha subunit [Source:HGNC Symbol;Acc:HGNC:10588]
Coordinates
chr2:31044435-31046508:-
Coord C1 exon
chr2:31046445-31046508
Coord A exon
chr2:31044782-31044923
Coord C2 exon
chr2:31044435-31044641
Length
142 bp
Sequences
Splice sites
3' ss Seq
TTCTTTTCACCTAATCACAGCCA
3' ss Score
5.24
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
Exon sequences
Seq C1 exon
GTCACTTTTATTTTTTGGAAGGGCAAAATGATGCTCTGCTTTGTGGCAACAGCTCTGATGCAGG
Seq A exon
CCAGTGTCCAGAAGGATACATCTGTGTGAAGGCTGGTCGAAACCCCAACTATGGCTACACAAGCTTTGACACCTTTAGCTGGGCTTTCCTGTCCTTATTTCGTCTCATGACTCAAGACTTCTGGGAAAACCTTTATCAGCTG
Seq C2 exon
ACACTACGTGCTGCTGGGAAAACATACATGATATTTTTTGTGCTGGTCATTTTCTTGGGCTCCTTCTATCTAATAAATTTGATCCTGGCTGTGGTGGCCATGGCCTATGAAGAACAGAATCAGGCAACGCTGGAAGAGGCTGAACAGAAAGAAGCTGAATTTCAGCAGATGCTTGAACAGCTTAAAAAGCAACAAGAAGAAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038180-'10-10,'10-9,11-10=AN
Average complexity
A_S
Mappability confidence:
88%=50=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.058
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(7.8=100)
A:
PF0052026=Ion_trans=FE(17.5=100)
C2:
PF0052026=Ion_trans=PD(11.6=44.9)
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:
TGATGCTCTGCTTTGTGGCAA
R:
CTGAGCTTCTTCTTGTTGCTTT
Band lengths:
243-385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]