RnoEX6038197 @ rn6
Exon Skipping
Gene
ENSRNOG00000015049 | Scn5a
Description
sodium voltage-gated channel alpha subunit 5 [Source:RGD Symbol;Acc:3637]
Coordinates
chr8:128201361-128206900:-
Coord C1 exon
chr8:128206544-128206900
Coord A exon
chr8:128202802-128203242
Coord C2 exon
chr8:128201361-128201519
Length
441 bp
Sequences
Splice sites
3' ss Seq
TTGAGCTGTTGCCTCAACAGGTC
3' ss Score
9.11
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
Exon sequences
Seq C1 exon
CTGCGGGTCTTCAAGCTGGCCAAGTCCTGGCCCACCCTGAACACGCTCATCAAGATCATCGGGAACTCCGTGGGCGCCCTGGGGAACCTGACCCTGGTGCTGGCCATCATCGTCTTCATCTTCGCCGTGGTGGGCATGCAGCTCTTCGGCAAGAACTACTCGGAGCTGAGGCACCGCATCAGCGACTCCGGCCTGCTGCCCCGCTGGCACATGATGGACTTTTTCCACGCCTTCCTCATCATCTTCCGCATCCTCTGTGGGGAGTGGATCGAGACCATGTGGGACTGCATGGAGGTGTCTGGGCAGTCGCTGTGCTTGCTGGTCTTCCTGCTCGTCATGGTCATTGGCAACCTTGTG
Seq A exon
GTCCTGAATCTCTTCTTGGCCTTGCTGCTCAGCTCCTTCAGCGCAGACAACCTCACAGCCCCTGACGAGGATGGGGAGATGAACAACCTCCAGCTGGCCCTGGCTCGCATCCAGAGGGGCCTGCGCTTTGTCAAGCGGACCACCTGGGACTTCTGCTGCGGGATCCTGCGGCGGCGACCTAAGAAGCCCGCGGCTCTTGCCACCCACAGCCAGCTGCCCAGCTGTATCACCGCCCCCAGGTCCCCACCACCCCCAGAGGTGGAGAAGGTGCCCCCAGCCCGCAAGGAAACACGATTCGAGGAGGACAAGCGACCCGGCCAGGGCACCCCTGGGGATTCGGAGCCTGTGTGTGTGCCCATCGCCGTGGCTGAGTCAGACACTGAAGACCAGGAAGAGGATGAAGAGAACAGCCTTGGCACAGAGGAAGAGTCCAGCAAACAG
Seq C2 exon
GAATCCCAAGTTGTGTCTGGTGGCCACGAGCCCTACCAGGAGCCCAGGGCCTGGAGCCAGGTGTCAGAGACCACGTCCTCTGAAGCTGGGGCCAGTACATCTCAGGCAGACTGGCAGCAAGAGCAGAAAACGGAGCCCCAGGCCCCGGGGTGCGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015049-'24-27,'24-24,25-27=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.531 C2=1.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(62.1=100)
A:
PF0052026=Ion_trans=PD(4.2=5.4),PF065128=Na_trans_assoc=PU(46.9=83.7)
C2:
PF065128=Na_trans_assoc=FE(19.8=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:
TCAGAGGACGTGGTCTCTGAC
Band lengths:
342-783
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]