GgaEX7001702 @ galGal4
Exon Skipping
Gene
ENSGALG00000027702 | SCN11A
Description
sodium channel, voltage gated, type XI alpha subunit [Source:HGNC Symbol;Acc:HGNC:10583]
Coordinates
chr2:5319669-5323871:+
Coord C1 exon
chr2:5319669-5320022
Coord A exon
chr2:5320766-5321221
Coord C2 exon
chr2:5323760-5323871
Length
456 bp
Sequences
Splice sites
3' ss Seq
CTTACCTTATCTCCTTTAAGGTT
3' ss Score
10.47
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
Exon sequences
Seq C1 exon
CTCAGGATCTTCAAATTGGCAAAGATGTGGCCAGCCTTAAATACTCTTATGAAAATAATTCTAAACTCAGTTGGTGCGCTGGGTAACCTCACTCTGGTTTTGATTATCACTGTATTTATTTTTGCTGTAGTTGGAAAGCAGGTTTTGGGCAAATATTACGCTACTGAGTTCAATAAAATAAGTACAACCGCGAACTTACGCTGGCATATGAAGGATTTTTATCATTCATTCCTGGTCATATTCCGAATATTATGTGGAGAATGGATTGAAACCATGTGGGAATGTATGGAAGTGGCTGGACAAGAGCGGTGTCTTCCCATTTTCTTGCTAGTCCTGGTGATAGGAAACTTAGTG
Seq A exon
GTTCTCAACCTATTCATTGCGCTGCTGCTGAGTTCTTTCAGTACTGACTCCTCATTGGGACAAGAGGAAGCTGTAAAACAGAGTAAATGTGAGATTGCCATTGCACGGATTCATAAAGGCCTTCAGTCTGTGAAAGAGAGAATTTTGGATAAGTGTGGCAAAAAGAGGGAACAAAGCAACAACACAACAACCAAAAAGAAGACTTCAGTAAAAACTTCTTTCAAAGACTTAGAGAGAAATAACTATGCTATGACAGATGTTGGAAAGGATATGGACAACAGTTGCTTTGACGTTGGGTGTTACAATAATGAGGAGAGTTCCTCAGTAGAAAGAAAATATGAAGGCTCTTTAAACTACCATGGTGGCCACATCCCCCTTGCAGTAGCAGAGGCTTATACCGATGAAGGTGATGATGATGAGCAGAGTGCATGCACAGAAGGAGAATACAGAAAATGG
Seq C2 exon
GGATTTGATGTTGGTAGCTATTCTGAAGCCAGCACTGTGGACCCAGTCACTCTTATAGAGCTGTATTCCCAACCTAAAAAAATACATTTACCTAAGGACTGTTGCGCAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027702-'17-18,'17-16,18-18=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=0.099 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(64.3=100)
A:
PF0052026=Ion_trans=PD(4.4=5.3),PF065128=Na_trans_assoc=PU(60.3=82.9)
C2:
PF065128=Na_trans_assoc=FE(17.7=100)
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:
TAAACTCAGTTGGTGCGCTGG
R:
TAAGAGTGACTGGGTCCACAG
Band lengths:
348-804
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]