GgaEX1051150 @ galGal4
Exon Skipping
Gene
ENSGALG00000027702 | SCN11A
Description
sodium channel, voltage gated, type XI alpha subunit [Source:HGNC Symbol;Acc:HGNC:10583]
Coordinates
chr2:5335005-5338309:+
Coord C1 exon
chr2:5335005-5335106
Coord A exon
chr2:5335534-5335798
Coord C2 exon
chr2:5337168-5338309
Length
265 bp
Sequences
Splice sites
3' ss Seq
ATTCTTCTCTGTCTCCACAGAAT
3' ss Score
11.81
5' ss Seq
TTAGTAAGT
5' ss Score
7.79
Exon sequences
Seq C1 exon
GGTGGAAAAGATCTCTTTTTGACTGAGGAACAGAAAAAGTACTATAATGCCCTAAAAAAACTCGGATCCAAGAAACCTCAAAAACCCATCCCAAGACCATTG
Seq A exon
AATGCATTTCAAGGATTTTTCTTTGACATAGTGTCACACAAAGCATTTGACATTAGTGTGGTGACTCTCATCTGTCTAAATATGGTTGTGATGATGGCAGAAAGTGACAATGGAGAAGTCAGGGATGTTCTTAAAAAAATCAACTACTTCTTTGTGACAGTATTTACTGGGGAATGCATCATAAAAATAATAGCCTTGAGACATTACTTCTTCACCACTGGCTGGAACATATTTGATTTAGTTGTTGTGGTCCTTTCACTAGTTA
Seq C2 exon
GTATTGCACTTGCTGAAGTCTTTTCAAAGTTCTTCTCTCCTACGCTTCTGAGAATTATTCGTTTGGCACGAATTGGCCGCATTCTGAGATTAGTTAAAAGAGCTAAAGGAATTCGAACTCTTCTTTTTGCCTTATTGATGTCTCTTCCGTCTCTGTTCAACATTGGCCTCTTGCTATTTCTGGTTATGTTCATTTATGCTATTGTGGGCATGACAAATTTTGCCTGTCTTGGCTGGGAAGGTGGGATCGATAACCTTTTCAACTTTCAAACTTTTGATAGTAGCATACTCTGTCTCTTCCAAATTACGACATCAGCTGGCTGGGATAGCCTTCTGAGTCCAGTGTTGAAAGAATCCGAAACGTGTGCTCCCAATGTACCACAGAATAACTCTAGTTGCAGAAATAAAGTGGTTGGTATTACATTTTTCGTAAGCTATGTCATTATATCCTTTCTTATTGTTGTAAATATGTACATAGCTGTCATTTTAGAGAACTTCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027702-'28-30,'28-29,29-30
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
NA
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.024
Domain overlap (PFAM):
C1:
NO
A:
PF0052026=Ion_trans=PU(21.0=48.3)
C2:
PF0052026=Ion_trans=PD(78.5=42.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCGGATCCAAGAAACCTCA
R:
TATCGATCCCACCTTCCCAGC
Band lengths:
295-560
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]