RnoINT0112324 @ rn6
Intron Retention
Gene
ENSRNOG00000015152 | Pkp3
Description
plakophilin 3 [Source:RGD Symbol;Acc:1309133]
Coordinates
chr1:213895514-213895878:+
Coord C1 exon
chr1:213895514-213895631
Coord A exon
chr1:213895632-213895707
Coord C2 exon
chr1:213895708-213895878
Length
76 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CCTCTGTTCCTTCCCTGCAGAGT
3' ss Score
12.87
Exon sequences
Seq C1 exon
GAACCTCAGCTCAGCCTCCCAGGCCACTCGCCAGAAGATGCGTGAGTGCCATGGGCTAGTGGATGCTCTGGTCACCTACATCAACCATGCCCTGGACGTGGGCAAGTGTGAGGACAAG
Seq A exon
GTGAGGGGCAGCTGGTGAGCCAAGGGGGCCCAGGGGCTTCGGCCCACTCTGATCACCCTCTGTTCCTTCCCTGCAG
Seq C2 exon
AGTGTGGAAAATGCTGTGTGTGTGCTGAGGAATTTGTCCTACCGCCTATATGATGAGATGCCACCATCAGCACTGCAGCGGCTTGAAGGCCGCGGCCGCAGGGACATGGCGGGGGCACCACCTGGTGAAGTGGTGGGCTGCTTTACACCCCAGAGTCGGCGGCTGCGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015152:ENSRNOT00000020864:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.193
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGGCAAGTGTGAGGACAAG
R:
GACTCTGGGGTGTAAAGCAGC
Band lengths:
178-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]