GgaEX7001713 @ galGal4
Exon Skipping
Gene
ENSGALG00000027702 | SCN11A
Description
sodium channel, voltage gated, type XI alpha subunit [Source:HGNC Symbol;Acc:HGNC:10583]
Coordinates
chr2:5301781-5304252:+
Coord C1 exon
chr2:5301781-5302053
Coord A exon
chr2:5303344-5303464
Coord C2 exon
chr2:5304165-5304252
Length
121 bp
Sequences
Splice sites
3' ss Seq
TCTTTTTTCTTTTTTAATAGACT
3' ss Score
9.27
5' ss Seq
CATATCCTT
5' ss Score
-20.06
Exon sequences
Seq C1 exon
ATGGAACCCTTGTTTTGGCCACTGGAAACTATCAGCTTTCAACGTTTCACTCCTGAGTCCTTGGCAGCAATTGAGAAAAAAATTGCTGAGAAAAAAGAGAAGCAAGCCAAACTTAAGCAGGAAACTACTGACCAAGAAGTTGAAGAGGATAAAGTGACTCCTCAGCTTGATCTGAAAACCTGTAAAAAACTGCCATCTCTCTATGGTGATGTTCCCGCGGAGCTTATTGGGGAACCTCTGGAAGACTTGGATCCATACTACAGTGATCACAGG
Seq A exon
ACTTTCATGGTGATCAATAAAAGAAGGACTATTTTCCGGTTTACTGCCACACCTGCCTTGTGTATACTCGGTCCTTTTAATCCAATCAGAAAAGCAGCGATTAAAATTCTCATCCATTCAT
Seq C2 exon
TATTTGTTGGCTTTATTACGTGTACTGTGATACTCAATTGTGCTTCCATGGCTATGAATAACTATCCACTAGATTTCAATGGGACTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027702-'0-1,'0-0,1-1=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=0.165 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0052026=Ion_trans=PU(0.4=3.3)
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:
TTCACTCCTGAGTCCTTGGCA
R:
TCACAGTACACGTAATAAAGCCAACA
Band lengths:
258-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]