RnoEX6017177 @ rn6
Exon Skipping
Gene
ENSRNOG00000053122 | Scn1a
Description
sodium voltage-gated channel alpha subunit 1 [Source:RGD Symbol;Acc:69364]
Coordinates
chr3:52421613-52431091:-
Coord C1 exon
chr3:52430735-52431091
Coord A exon
chr3:52429871-52430353
Coord C2 exon
chr3:52421613-52421733
Length
483 bp
Sequences
Splice sites
3' ss Seq
TACCTATGTCTGTTTTCAAGGTC
3' ss Score
8.99
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
Exon sequences
Seq C1 exon
CTCCGAGTCTTCAAGTTGGCAAAGTCCTGGCCCACACTGAACATGCTCATTAAGATCATCGGCAACTCGGTGGGCGCACTGGGCAACCTGACCCTGGTGCTGGCCATCATCGTCTTCATTTTTGCCGTGGTCGGCATGCAGCTGTTCGGCAAAAGTTACAAAGATTGTGTCTGCAAAATTGCCACTGACTGCAAACTCCCGCGCTGGCACATGAACGACTTCTTCCACTCCTTCCTGATCGTGTTCCGAGTGCTGTGTGGGGAGTGGATAGAGACCATGTGGGACTGCATGGAGGTCGCGGGTCAAGCCATGTGCCTTACTGTCTTCATGATGGTCATGGTGATTGGGAACCTTGTG
Seq A exon
GTCCTGAACCTCTTTCTGGCCTTGCTTCTGAGCTCATTTAGTGCAGACAACCTTGCAGCCACTGACGATGACAACGAAATGAACAACCTTCAAATTGCTGTGGACAGGATGCACAAAGGAGTAGCTTATGTAAAAAGAAAAATATATGAGTTTATTCAACAGTCCTTTGTTAGGAAACAGAAGATCCTAGATGAAATTAAGCCACTTGATGATCTAAACAACAGAAAAGACAATTGTACATCTAACCACACGACAGAGATTGGGAAAGATCTGGACTGTCTGAAAGATGTGAATGGAACCACGAGTGGCATAGGGACCGGCAGCAGTGTGGAAAAGTACATCATTGATGAGAGTGACTACATGTCATTCATAAACAACCCCAGCCTCACCGTGACTGTGCCCATTGCTGTGGGAGAGTCTGACTTTGAAAACTTAAACACAGAGGACTTTAGCAGTGAATCAGATCTAGAAGAAAGCAAAGAG
Seq C2 exon
AAACTCAACGAAAGCAGTAGTTCCTCAGAAGGAAGCACAGTAGACATCGGGGCACCTGCGGAGGAACAGCCTGTCATGGAACCAGAAGAAACCCTTGAGCCCGAAGCTTGCTTCACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053122-'23-26,'23-25,24-26=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.161 C2=0.780
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(62.1=100)
A:
PF0052026=Ion_trans=PD(4.2=5.0),PF065128=Na_trans_assoc=PU(61.4=85.1)
C2:
PF065128=Na_trans_assoc=FE(17.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGCCATCATCGTCTTCAT
R:
GGTTCCATGACAGGCTGTTCC
Band lengths:
342-825
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]