RnoALTA0035245-1/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000005309 | Scn8a
Description
sodium voltage-gated channel alpha subunit 8 [Source:RGD Symbol;Acc:3638]
Coordinates
chr7:142594430-142595693:+
Coord C1 exon
chr7:142594430-142594548
Coord A exon
NA
Coord C2 exon
chr7:142595606-142595693
Length
0 bp
Sequences
Splice sites
5' ss Seq
CTCATATCC
5' ss Score
-13.36
3' ss Seq
CCCTTAACTCCGATCTACAGTTT
3' ss Score
5.59
Exon sequences
Seq C1 exon
ACCTTTGTAGTATTAAACAGAGGGAAAACTCTCTTCAGATTTAGTGCCACACCTGCCTTGTACATTTTAAGCCCTTTTAACCTGATAAGAAGAATAGCTATTAAAATTTTGATACACTC
Seq A exon
NA
Seq C2 exon
TTTTCAGCATGATCATCATGTGCACCATCCTGACCAACTGTGTGTTCATGACCTTTAGTAACCCTCCAGAATGGTCCAAGAATGTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005309-7-7,7-6-1/2
Average complexity
Alt3
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0052026=Ion_trans=PU(0.8=6.7)
Other Inclusion Isoforms:
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:
GCCACACCTGCCTTGTACATT
R:
GTCAGGATGGTGCACATGATGA
Band lengths:
108-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]