RnoEX6017173 @ rn6
Exon Skipping
Gene
ENSRNOG00000053122 | Scn1a
Description
sodium voltage-gated channel alpha subunit 1 [Source:RGD Symbol;Acc:69364]
Coordinates
chr3:52436011-52439598:-
Coord C1 exon
chr3:52439392-52439598
Coord A exon
chr3:52437264-52437548
Coord C2 exon
chr3:52436011-52436358
Length
285 bp
Sequences
Splice sites
3' ss Seq
ATGGTTTCTCCTCTGTGTAGCAG
3' ss Score
6.86
5' ss Seq
CAGGTACGC
5' ss Score
10.12
Exon sequences
Seq C1 exon
ACATTGCGTGCTGCCGGGAAAACATACATGATATTTTTTGTGCTGGTCATTTTCTTGGGCTCATTCTACCTGATAAACTTGATCCTGGCTGTGGTGGCCATGGCCTATGAGGAACAGAACCAGGCCACATTGGAGGAGGCTGAACAGAAGGAGGCAGAGTTTCAGCAGATGCTGGAGCAACTGAAGAAGCAGCAGGAAGCCGCACAG
Seq A exon
CAGGCGGCGGCAGCAACAGCATCAGAACATTCCAGGGAGCCCAGTGCAGCGGGCAGGCTCTCAGATAGCTCTTCAGAAGCCTCCAAGTTGAGTTCAAAGAGCGCTAAAGAAAGGCGGAATCGGAGGAAAAAAAGAAAACAGAAAGAGCAGTCTGGAGGGGAAGAGAAAGATGATGATGAATTCCACAAATCCGAGTCCGAAGATAGCATCAGGAGGAAGGGCTTCCGCTTCTCCATAGAAGGGAACAGACTGACCTATGAAAAGAGGTACTCTTCCCCACATCAG
Seq C2 exon
TCTCTGTTGAGCATTCGCGGCTCACTGTTTTCCCCGAGACGCAATAGCAGAACAAGTCTTTTCAGCTTCAGAGGGCGAGCGAAGGACGTGGGGTCTGAGAATGATTTTGCGGACGATGAGCACAGCACCTTCGAGGACAATGAGAGCAGGAGAGACTCTCTGTTTGTTCCCCGAAGACATGGAGAGCGACGCAACAGTAACCTCAGCCAAACCAGCAGATCCTCCCGAATGCTGGCGGGGCTTCCAGCAAACGGGAAGATGCACAGCACAGTGGATTGCAATGGTGTGGTTTCCTTGGTGGGCGGACCCTCGGTTCCGACATCGCCAGTTGGACAGCTTCTGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053122-'15-20,'15-18,16-20=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.232 A=0.863 C2=0.708
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(11.6=44.9),PF0293211=Neur_chan_memb=PU(34.3=89.9)
A:
PF0293211=Neur_chan_memb=FE(51.9=100),PF119333=DUF3451=PU(31.1=73.7)
C2:
PF0293211=Neur_chan_memb=PD(12.2=19.0),PF119333=DUF3451=FE(51.1=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CCACATTGGAGGAGGCTGAAC
R:
TTGGCTGAGGTTACTGTTGCG
Band lengths:
293-578
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]