GgaEX6018326 @ galGal4
Exon Skipping
Gene
ENSGALG00000006112 | SCN5A
Description
sodium channel, voltage gated, type V alpha subunit [Source:HGNC Symbol;Acc:HGNC:10593]
Coordinates
chr2:5524334-5559148:+
Coord C1 exon
chr2:5524334-5524690
Coord A exon
chr2:5544395-5544865
Coord C2 exon
chr2:5559002-5559148
Length
471 bp
Sequences
Splice sites
3' ss Seq
TCCTTTCAACTTTGTTTCAGGTG
3' ss Score
11.16
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
Exon sequences
Seq C1 exon
CTGCGGGTCTTCAAATTGGCCAAGTCGTGGCCGACCTTAAACACGCTCATTAAAATCATCGGTAATTCCGTGGGCGCCCTCGGGAACCTCACCCTTGTGCTGGCAATCATCGTCTTTATTTTCGCCGTGGTAGGAATGCAGCTTTTTGGGAAGAGCTACCTGGACAACGTTAAGAAGATAAGCACAACTGGCAATTTGCCACGCTGGCACATGAACGATTTCTTCCATTCGTTCCTCATCATCTTCCGAATCCTATGCGGAGAGTGGATCGAGACCATGTGGGACTGCATGGAAGTAGCTGGGCAGCCCCTGTGCCTTCTCGTCTTCTTGTTGGTCATGGTGATAGGAAACCTGGTG
Seq A exon
GTGCTCAACCTGTTCCTTGCCTTGCTGCTCAGCTCTTTCAGTGCTGACAACCTTTCGGCACCAGACGAGGATGGAGAGATGAACAACCTGCAGCTTGCCTTTGCTCGGATCAACAGGGGTCTTCAGTATGTGAAACACACCACGTGGGATTTTTGCTGCAACGTCCTCCGGCATCCCAAGACAACAGCTGAGAAGAAGGCAATGATGAAGCTTGCTGCCCAGAATACAGGTGCCCTTAACAATTGTGTCAACAGCCACCCAACTGCTGAGCTTGGCAAAGAGATGGAGAATCACAAAGAGAACCACACAGAGGATGGGACGAATAAAAATGTGGAGAAACACCTGGGAATTACAGACAACGATGACTTTATGACCAATCCTGACCTATCAATTTGTGTTCCTATTGCTGTGGGAGAGTCTGATATCGAGGAGGAAGATGAGGAGCAAAGCACGTTTACAGAAATGGAGCAG
Seq C2 exon
CAGGAAAAGCAGCTGCAGCTGAGGGGGCAGCGATGCCAAAGCCCAGGCGCCCGAAGTCAGAACTCTGAGATTTGTGAAGAGTTAAGTGAGTTGCACGTGGATAAGCAGTTGAAGGCTGAGCCACCACCTCCAGTAGGGCAAAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006112-'19-23,'19-21,20-23=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.433 C2=0.776
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(62.1=100)
A:
PF0052026=Ion_trans=PD(4.2=5.1),PF065128=Na_trans_assoc=PU(49.6=84.7)
C2:
PF065128=Na_trans_assoc=FE(17.9=100)
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:
CCGTGGTAGGAATGCAGCTTT
R:
GGCTCAGCCTTCAACTGCTTA
Band lengths:
355-826
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]