RnoINT0112325 @ rn6
Intron Retention
Gene
ENSRNOG00000015152 | Pkp3
Description
plakophilin 3 [Source:RGD Symbol;Acc:1309133]
Coordinates
chr1:213895708-213896160:+
Coord C1 exon
chr1:213895708-213895878
Coord A exon
chr1:213895879-213895974
Coord C2 exon
chr1:213895975-213896160
Length
96 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TCCTGTACCCTCCCACTTAGCTT
3' ss Score
5.1
Exon sequences
Seq C1 exon
AGTGTGGAAAATGCTGTGTGTGTGCTGAGGAATTTGTCCTACCGCCTATATGATGAGATGCCACCATCAGCACTGCAGCGGCTTGAAGGCCGCGGCCGCAGGGACATGGCGGGGGCACCACCTGGTGAAGTGGTGGGCTGCTTTACACCCCAGAGTCGGCGGCTGCGAGAG
Seq A exon
GTGAGCCCAGGCCTGGGAGGCCAGGGACAGGGAGTACCAGCCTGATGCTCCGACCTCAGTTGTCCCCCTGGTTGATTCCTGTACCCTCCCACTTAG
Seq C2 exon
CTTCCTCTCACAGCCGATGCACTCACTTTTGCTGAAGTATCTAAGGATCCCAAGGGCCTTGAGTGGCTGTGGAGCCCCCAGATCGTGGGGTTGTACAACCGACTGCTGCAGCGCTGTGAACTAAATCGGCATACGACAGAGGCGGCTGCGGGAGCGCTACAGAATATCACCGCGGGTGACCGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015152:ENSRNOT00000020864:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.193 A=NA C2=0.032
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:
AAGTGGTGGGCTGCTTTACAC
R:
CGATTTAGTTCACAGCGCTGC
Band lengths:
172-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]