GgaEX6042499 @ galGal4
Exon Skipping
Gene
ENSGALG00000010943 | SCN1A
Description
sodium channel, voltage gated, type I alpha subunit [Source:HGNC Symbol;Acc:HGNC:10585]
Coordinates
chr7:19113603-19115532:+
Coord C1 exon
chr7:19113603-19113809
Coord A exon
chr7:19114161-19114466
Coord C2 exon
chr7:19115185-19115532
Length
306 bp
Sequences
Splice sites
3' ss Seq
TTCATTCTGTGATGTGACAGGCA
3' ss Score
5.96
5' ss Seq
CAGGTATTG
5' ss Score
8.35
Exon sequences
Seq C1 exon
ACACTACGTGCTGCTGGGAAAACATACATGATATTTTTCGTTTTGGTGATTTTTCTGGGCTCGTTCTATCTGATCAACTTGATCCTGGCTGTGGTTGCCATGGCCTATGAAGAGCAGAACCAAGCAACCCTTGAAGAAGCAGAGCAGAAAGAGGCAGAATTTCAACAAATGCTGGAACAGCTAAAGAAGCAGCAAGAAGCAGCTCAG
Seq A exon
GCAGCAGCGGTGGCAGCGGCGGCAGTTACAGCATCCGCAGAGTCCAGGGAACCCAGCGCTGCGGGAGGAGCAGGTGGGCTTTCAGAAAGTTCCTCAGAGGCTTCCAAATTGAGCTCAAAGAGTGCCAAAGAGAGGAGAAATAGAAGGAAAAAAAGAAAACAGAAAGAACAGTCTGGAGGAGAGGAAAAAGATGAAGATGAATTTCACAAGTCTGAATCAGAAGACAGCATCAGAAGAAAAGGTTTCCGGTTATCTATTGAAGGCAATAGACTGACATATGAAAAGAAATACTCTTCTCCACATCAG
Seq C2 exon
TCTTTGCTGAGCATTCGTGGCTCCCTGTTTTCCCCAAGGCGCAACAGCAGAACCAGTCTTTTCAGCTTCAGAGGTAGAGCAAAGGATATAGGATCTGAAAATGACTTTGCTGATGATGAGCACAGCACTTTTGAAGACAATGATAGCAGAAGAGATTCTCTCTTTGTGCCGCGCAGACACGGTGAACGGCGCAACAGTAACATTAGTCAGGCCAGTAGGTCATCCAGGATGCTGGCAGTGTTTCCAGTGAATGGGAAGATGCACAGCACTGTGGATTGCAATGGGGTGGTTTCCCTGGTTGGTGGACCATCTGTTCCTACATCGCCTGTTGGACAGCTTCTGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010943-'10-12,'10-11,11-12=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=0.755 C2=0.552
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(11.6=44.9),PF0253517=Zip=FE(38.6=100)
A:
PF0253517=Zip=PD(48.3=83.3),PF119333=DUF3451=PU(31.1=68.6)
C2:
PF119333=DUF3451=FE(51.1=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTTGCCATGGCCTATGAA
R:
GGATGACCTACTGGCCTGACT
Band lengths:
342-648
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]