RnoEX0066487 @ rn6
Exon Skipping
Gene
ENSRNOG00000005504 | Pkp4
Description
plakophilin 4 [Source:RGD Symbol;Acc:1307840]
Coordinates
chr3:45277348-45326926:+
Coord C1 exon
chr3:45277348-45277483
Coord A exon
chr3:45277602-45277698
Coord C2 exon
chr3:45326814-45326926
Length
97 bp
Sequences
Splice sites
3' ss Seq
TCACGTTTTCTAATTATAAGGTG
3' ss Score
5.44
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
Exon sequences
Seq C1 exon
AGGAATGCCCGCCCCTGAACAGGCCTCACTGGTGGAGGAGGGGCAACCACAGACCCACCAGGAAGCTGTCTCCACTGGCCCAGGCATGGAACCCGAGACCACAGCCACCACTATTCTAGCTTCCGTGAAGGAGCAG
Seq A exon
GTGTTTACATCCCTGAGTACATTGGGATGACTGGCATGTAGAGCTGCTCCAGCTGCCAGTCAGAATCGGAACATGCAGGATACTTGTGCGTCTGCAA
Seq C2 exon
GAGCTTCAGTTTCAACGACTCACCCGAGAACTGGAAGTGGAAAGGCAGATTGTTGCCAGTCAGCTAGAAAGATGTAGGCTTGGAGCAGAATCGCCCAGCATCGCCAGCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005504_MULTIEX1-1/6=C1-2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.955 A=0.444 C2=0.623
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Inclusion Isoform:
ENSRNOT00000059246fB10808
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAGGAAGCTGTCTCCACTG
R:
GCGATTCTGCTCCAAGCCTAC
Band lengths:
174-271
Functional annotations
There are 1 annotated functions for this event
PMID: 31911676
[CRISPR screen]. Conserved poison exon with pro-oncogenic impact when depleted: HeLa Enriched at 14 days (FC=1.258, FDR=0.000), PC9 No Change at 14 days (FC=1.248, FDR=0.033), Late Xenograft No change (FC=1.363, FDR=0.273).
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]