RnoINT0112314 @ rn6
Intron Retention
Gene
ENSRNOG00000015152 | Pkp3
Description
plakophilin 3 [Source:RGD Symbol;Acc:1309133]
Coordinates
chr1:213895975-213896650:+
Coord C1 exon
chr1:213895975-213896160
Coord A exon
chr1:213896161-213896496
Coord C2 exon
chr1:213896497-213896650
Length
336 bp
Sequences
Splice sites
5' ss Seq
AGGGTCAGT
5' ss Score
5.85
3' ss Seq
CTCCCTGTCTTTCTCTGCAGTGG
3' ss Score
11.7
Exon sequences
Seq C1 exon
CTTCCTCTCACAGCCGATGCACTCACTTTTGCTGAAGTATCTAAGGATCCCAAGGGCCTTGAGTGGCTGTGGAGCCCCCAGATCGTGGGGTTGTACAACCGACTGCTGCAGCGCTGTGAACTAAATCGGCATACGACAGAGGCGGCTGCGGGAGCGCTACAGAATATCACCGCGGGTGACCGCAGG
Seq A exon
GTCAGTAGGCTGACAGGCCCCACTCCTGTCTTATGCTAAGCACTCAGGCTCACGCATGAAAGCCACACCCTAGGAATTCATGGTCTGTTGTGGGGAAGGATCCCTAAAAGTGAGGCATAAAACCCTTGCTCAGCCTGGGGAGTGGGACCCTGTGTGGATTTGGGGGTTCTGACATTCTGAGCAGAAGGGTTACCTGGTCAGGTCCTGACTTGGCAGAGCAGGCTGAAGTAGTAGTCAAGAAATGAAGAAGTGATTCTGCCTCAATCCTGAACGGGGCTGGCTAGGGCTGGCCCGGCTGCTTCTGGGCTTCACCATGCTCCCTGTCTTTCTCTGCAG
Seq C2 exon
TGGGCAGGTGTACTGAGCCGCCTGGCCCTGGAACAGGAACGCATCCTGAACCCCTTGCTGGACCGCGTTCGCACCGCTGACCACAACCAGCTGCGCTCACTGACTGGCCTCATCCGAAACCTGTCTCGGAATGCTCGGAACAAGGACGAGATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015152:ENSRNOT00000020864:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.000
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:
CTTCCTCTCACAGCCGATGC
R:
CATCTCGTCCTTGTTCCGAGC
Band lengths:
339-675
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]