RnoEX6017172 @ rn6
Exon Skipping
Gene
ENSRNOG00000053122 | Scn1a
Description
sodium voltage-gated channel alpha subunit 1 [Source:RGD Symbol;Acc:69364]
Coordinates
chr3:52437264-52440322:-
Coord C1 exon
chr3:52440181-52440322
Coord A exon
chr3:52439392-52439598
Coord C2 exon
chr3:52437264-52437548
Length
207 bp
Sequences
Splice sites
3' ss Seq
TCTGATCTTCTTGTTTGTAGACA
3' ss Score
7.7
5' ss Seq
CAGGTACTC
5' ss Score
7.04
Exon sequences
Seq C1 exon
CCAATGTCCAGAAGGTTACATGTGTGTAAAAGCTGGCAGAAACCCTAACTATGGTTACACAAGCTTTGACACCTTCAGCTGGGCATTTCTGTCCCTGTTTCGACTGATGACTCAGGACTTCTGGGAAAATCTTTACCAACTG
Seq A exon
ACATTGCGTGCTGCCGGGAAAACATACATGATATTTTTTGTGCTGGTCATTTTCTTGGGCTCATTCTACCTGATAAACTTGATCCTGGCTGTGGTGGCCATGGCCTATGAGGAACAGAACCAGGCCACATTGGAGGAGGCTGAACAGAAGGAGGCAGAGTTTCAGCAGATGCTGGAGCAACTGAAGAAGCAGCAGGAAGCCGCACAG
Seq C2 exon
CAGGCGGCGGCAGCAACAGCATCAGAACATTCCAGGGAGCCCAGTGCAGCGGGCAGGCTCTCAGATAGCTCTTCAGAAGCCTCCAAGTTGAGTTCAAAGAGCGCTAAAGAAAGGCGGAATCGGAGGAAAAAAAGAAAACAGAAAGAGCAGTCTGGAGGGGAAGAGAAAGATGATGATGAATTCCACAAATCCGAGTCCGAAGATAGCATCAGGAGGAAGGGCTTCCGCTTCTCCATAGAAGGGAACAGACTGACCTATGAAAAGAGGTACTCTTCCCCACATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053122-'14-18,'14-17,15-18=AN
Average complexity
A_S
Mappability confidence:
100%=75=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.232 C2=0.863
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(17.6=100)
A:
PF0052026=Ion_trans=PD(11.6=44.9),PF0293211=Neur_chan_memb=PU(34.3=89.9)
C2:
PF0293211=Neur_chan_memb=FE(51.9=100),PF119333=DUF3451=PU(31.1=73.7)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCAGCTGGGCATTTCTGT
R:
AAGCCCTTCCTCCTGATGCTA
Band lengths:
295-502
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]