RnoALTD0026725-1/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000015049 | Scn5a
Description
sodium voltage-gated channel alpha subunit 5 [Source:RGD Symbol;Acc:3637]
Coordinates
chr8:128169191-128175816:-
Coord C1 exon
chr8:128175546-128175816
Coord A exon
NA
Coord C2 exon
chr8:128169191-128172619
Length
0 bp
Sequences
Splice sites
5' ss Seq
TTGGTGGGT
5' ss Score
4.3
3' ss Seq
GTCTTGCTTGTTTCCCACAGGCA
3' ss Score
10.78
Exon sequences
Seq C1 exon
AACAAGTACCAGGGTTTCATATTCGACATTGTGACCAAGCAGGCCTTCGATGTCACCATCATGTTCCTCATCTGTTTGAACATGGTGACCATGATGGTGGAGACAGATGACCAGAGCCCTGAGAAGGTCAACATCTTGGCCAAGATCAACCTGCTCTTCGTGGCCATCTTCACAGGCGAGTGTATTGTCAAGATGGCTGCCCTGCGCCACTATTACTTCACCAACAGCTGGAACATCTTCGACTTTGTGGTGGTCATCCTCTCCATTGTTG
Seq A exon
NA
Seq C2 exon
GCACTGTCCTCTCCGACATCATCCAGAAGTACTTCTTCTCCCCGACACTCTTCCGGGTCATCCGTCTGGCCAGGATCGGCCGCATCCTCAGGCTGATCCGCGGAGCCAAGGGGATTCGCACGCTGCTCTTCGCCCTCATGATGTCCCTGCCCGCCCTCTTCAACATCGGCCTCCTCCTCTTCCTCGTCATGTTCATCTACTCCATCTTCGGCATGGCCAACTTCGCTTACGTCAAGTGGGAGGCCGGCATCGATGACATGTTCAACTTCCAGACCTTCGCCAACAGCATGCTGTGCCTGTTCCAGATCACCACATCGGCCGGCTGGGACGGCCTCCTCAGCCCCATCCTCAACACGGGGCCTCCCTACTGCGACCCCAACCTGCCCAACAGCAACGGCTCCCGGGGGAACTGTGGGAGCCCGGCGGTGGGCATCCTCTTCTTCACCACCTACATCATCATCTCCTTCCTCATCGTGGTCAACATGTACATCGCCATCATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015049-37-39,38-39-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.179
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PU(20.5=47.3)
A:
NA
C2:
PF0052026=Ion_trans=PD(79.0=40.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCTGCGCCACTATTACTTC
R:
TCTGGATGATGTCGGAGAGGAC
Band lengths:
100-104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]