RnoEX6017178 @ rn6
Exon Skipping
Gene
ENSRNOG00000053122 | Scn1a
Description
sodium voltage-gated channel alpha subunit 1 [Source:RGD Symbol;Acc:69364]
Coordinates
chr3:52420097-52430353:-
Coord C1 exon
chr3:52429871-52430353
Coord A exon
chr3:52421613-52421733
Coord C2 exon
chr3:52420097-52420251
Length
121 bp
Sequences
Splice sites
3' ss Seq
TATGACCATCTTATGCCCAGAAA
3' ss Score
4.22
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
Exon sequences
Seq C1 exon
GTCCTGAACCTCTTTCTGGCCTTGCTTCTGAGCTCATTTAGTGCAGACAACCTTGCAGCCACTGACGATGACAACGAAATGAACAACCTTCAAATTGCTGTGGACAGGATGCACAAAGGAGTAGCTTATGTAAAAAGAAAAATATATGAGTTTATTCAACAGTCCTTTGTTAGGAAACAGAAGATCCTAGATGAAATTAAGCCACTTGATGATCTAAACAACAGAAAAGACAATTGTACATCTAACCACACGACAGAGATTGGGAAAGATCTGGACTGTCTGAAAGATGTGAATGGAACCACGAGTGGCATAGGGACCGGCAGCAGTGTGGAAAAGTACATCATTGATGAGAGTGACTACATGTCATTCATAAACAACCCCAGCCTCACCGTGACTGTGCCCATTGCTGTGGGAGAGTCTGACTTTGAAAACTTAAACACAGAGGACTTTAGCAGTGAATCAGATCTAGAAGAAAGCAAAGAG
Seq A exon
AAACTCAACGAAAGCAGTAGTTCCTCAGAAGGAAGCACAGTAGACATCGGGGCACCTGCGGAGGAACAGCCTGTCATGGAACCAGAAGAAACCCTTGAGCCCGAAGCTTGCTTCACTGAAG
Seq C2 exon
GCTGTGTGCAGAGATTCAAGTGCTGTCAAATCAGTGTGGAAGAAGGAAGAGGAAAACAGTGGTGGAACCTTCGGAGAACGTGCTTCCGAATAGTTGAGCACAACTGGTTTGAGACCTTCATTGTGTTCATGATTCTCCTCAGTAGTGGTGCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053122-'24-27,'24-26,25-27=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.161 A=0.780 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.2=5.0),PF065128=Na_trans_assoc=PU(61.4=85.1)
A:
PF065128=Na_trans_assoc=FE(17.9=100)
C2:
PF065128=Na_trans_assoc=PD(19.7=84.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGCAGCAGTGTGGAAAAGTA
R:
TATTCGGAAGCACGTTCTCCG
Band lengths:
258-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]