GgaEX6027200 @ galGal4
Exon Skipping
Gene
ENSGALG00000000252 | SCN4A
Description
sodium channel, voltage gated, type IV alpha subunit [Source:HGNC Symbol;Acc:HGNC:10591]
Coordinates
chr27:1631780-1633111:-
Coord C1 exon
chr27:1632974-1633111
Coord A exon
chr27:1632648-1632752
Coord C2 exon
chr27:1631780-1632050
Length
105 bp
Sequences
Splice sites
3' ss Seq
AGTGGCGATTCCCTTTATACTTT
3' ss Score
-1.11
5' ss Seq
TCGGTACGT
5' ss Score
10.06
Exon sequences
Seq C1 exon
ATTGAAGAGCAGCCAGTGTACGAGATCAACCTCTACATGTACATCTACTTTGTCATCTTCATCATCTTTGGAGCTTTCTTCACCCTCAACCTCTTCATCGGTGTCATCATTGACAACTTCAACCAGCAGAAGAAAAAG
Seq A exon
TTTGGAGGCAAAGACATCTTCATGACAGAAGAGCAGAAGAAATACTATAATGCCATGAAGAAGCTCGGCTCCAAGAAACCCCAGAAGCCCATCCCCAGGCCCTCG
Seq C2 exon
AACAAGTTTCAAGGGATGGTGTTTGACTTTGTTACCAAGCAAGTGTTTGACATAACCATCATGATCCTGATTTGTCTTAACATGGTGACCATGATGGTCGAAACAGACGATCAAAGCGAGACCAAAACAGACATCCTCTACAAAATCAACCTGATCTTCATCGTCATCTTCACTGGAGAGTGTGTGCTAAAGATGTTTGCCTTGCGCTACTACTACTTCACCATTGGCTGGAACATCTTTGACTTTGTGGTGGTCATCCTCTCCATCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000252-'26-27,'26-26,27-27=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(15.4=76.1)
A:
NO
C2:
PF0052026=Ion_trans=PU(20.4=47.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGCAGCCAGTGTACGAGAT
R:
GGTCTCGCTTTGATCGTCTGT
Band lengths:
256-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]