RnoALTD0022394-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000005504 | Pkp4
Description
plakophilin 4 [Source:RGD Symbol;Acc:1307840]
Coordinates
chr3:45365648-45366004:+
Coord C1 exon
chr3:45365648-45365703
Coord A exon
chr3:45365704-45365709
Coord C2 exon
chr3:45365817-45366004
Length
6 bp
Sequences
Splice sites
5' ss Seq
AGGGTCTGT
5' ss Score
2.7
3' ss Seq
CTACTGTCCCGTTCTTGCAGGAT
3' ss Score
11.86
Exon sequences
Seq C1 exon
GACGGAGCCAGAGCAAGGGGCCCTCTACTCACCAGAGCAGACGTCTCTCCATGAAA
Seq A exon
GTGAGG
Seq C2 exon
GATCGTTGGGAAACTCAAGAAGTTCAACACAGATGAATTCTTACTCTGACAGTGGATACCAGGAAGCAGGGAGTTTCCACAACAGCCAGACCGTGAACAAGGCAGACAGTAGACAGCATCCATTCACGGGATCAACAAGCAACCATGTGGTGAGGAATTCGAGAGCAGAAGGACAAACACTGGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005504-27-22,28-22-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.938 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACCAGAGCAGACGTCTCTC
R:
ACTCCCTGCTTCCTGGTATCC
Band lengths:
102-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]