RnoINT0112322 @ rn6
Intron Retention
Gene
ENSRNOG00000015152 | Pkp3
Description
plakophilin 3 [Source:RGD Symbol;Acc:1309133]
Coordinates
chr1:213892635-213895028:+
Coord C1 exon
chr1:213892635-213892839
Coord A exon
chr1:213892840-213894853
Coord C2 exon
chr1:213894854-213895028
Length
2014 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
CTTGGCCCCATCTTGTGCAGGGA
3' ss Score
8.09
Exon sequences
Seq C1 exon
GCTCGCAGCCTCCAGGCAGTGCCGAGACTGGTGAAGCTCTTCAACCACGCCAACCAGGAGGTGCAGCGCCATGCCACCGGTGCCATGCGCAACCTCATCTATGACAACGTGGACAACAAACTGGCCTTGGTGGAGGAGAATGGCATCTTTGAGCTGTTGAGGACGCTTCGAGAGCAGGACGATGAGCTGCGCAAAAATGTTACAG
Seq A exon
GTACCCTTGTGCCTCCCCCTCTGCATTCTGGCCTGCTTTTCTGCCCTGTCCTGTCCTTGCCCCTCTCCCACCACACTCCCCCTCTTCTCCTCCCTTGTCCTCAACAATCTCCATCTTATGCCTTCCCTATCCCATCCTGCATTTTTCGGGGTTTGTTGTTCAAGTCTCTTGCTGCTGCTGTTGTCATCTCATTGATCATCACTTGGTGGGTGTGCATGCATTCAATGAGCGTCCATGTGGAGGTCGGAGGACAGTTTTCTCCTTCCACTGTGGGTTCTGGGGATTAAACTCAGGTAACCTGGCTTGTGCCATTTTACCAGCCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCAGACAGGAACTTACTACATAGCCTTGGCTGTCTTGAAACTCACTATGTAGACCAGCCTAGTCTTTAAGCCATAGAAACCTGCCTGCCCCTGCTTCCTGAGTGCTGGGATTAACAGTGTGTGCCACTATGCCTGGTTCATTTTATTATTTTTATAAAAGATTTGTTTATTTTTATTTTTTATGTATATGAAGTTTTTGCCTGCAGGTTTGTATGTTTACCGTATACCTGCCTGGTACCCAGAAAGGTCAGAAGAGGACATTAGAGCCCCTGAAACTAGAGTTACAGATGGCTATTAAAAGCCATGTTAGAAATGGGAACCAATTGTGTCCCCTATAAAACTAGTAAGTGCTCCACTCCACCATTTCTCTAGCCCCTGGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGATGTGTGTGCACGCACGCGCGTGTGTGTCTCCAATTTATTGATTTTATTTTATATGTATGACTGTTTTGCTTGCATGAACGTCTGTACACCACATGCATGCCCAGTGCCCAGTGGGGTCAGAAGAGGGCATCAGACCCCCTGGAACTAGAGTTAGAGATGATTGTGAACTATCATGTGGGTGCTGGGAATTGAACCCAGGTCTTCTGGAAGAGTGGCCTGTGCTCTTAACCACTGAGCCGTATCTCTGGCCTTCCCCAACCCATTCCCATTGCTCCACTCTGTACACTAAACTGGCCTTCATCTCACTATGTTTCACACTCTGGCCCTGAACTCACGGTAACCCTTCTGAGTTGTTGGAGTTACAGGCATGAGCCATCACGCCAAGCCAAACTTACTGTTGTGTTTGTTACTGTGGTCTTTGTTTTTGAGACAAGGTCTCACTATATAGCTCTGGCTGACCCAGAACTCATTATGTTCACCAAGCTGGCCTCAGACTCACAGAAATTACTTGCCTGTGTTCCCCAAATGCTGGGGTTAAAGGCATGTAACTCTTTGCCTGACAATTTATTTTGAGAGAGGGTTTCTCAAACTCATGGCAATCCTTCTATTTCTAGCTTCCTCAAATCCTAGATTATAAGTATCTCACCTACAGAATTATTTTTTGTGGCTTTTTACTCTTATTTTCTGTGGCGCTAGGTATGGCACTCAAGTATACAAGCAGAGCAAGTGTTCCTCCATGAGCTCCTCTTTGACTTCACTCCACTGAGTTCTCTTCCCATTCGCTTCCACTCCTAAGCCTTCAAATCCCCGTACCTTGTCTGTCTTTCTTGCTCTGTTCCTGCCCCATCCCCGCAAAGGTCACACTGAGGACTTTCCAGAGGAGCTCTAGAGTAAGGCAAAGCTCCAAGAAAGTGTGGGGTCAAGAGCTGAAGCGATGGCCCAGTGACTAAGAGTGTTTGCTGCTCTTCCGAAGGACCCAGGTTCTGTCCCCAGCACCCACATCAGGCAGCTCACGACTGCTTGTAACTCCAGCTCCAGGGTATCTGTTGCTTTCTCCTGGACTCCGCGGATACCTGTACTCATGTGGTTATGATGTACTCACGCATGGACACAAAGAAAGAAATCTCTGTAAAAAGTTGTGGAGAGCCTGCTCTGCACCATCCCCAGAGGAAGCAAAAGAGCCAGGGAACCGACCCTGACTGCAGCCTTGGCCCCATCTTGTGCAG
Seq C2 exon
GGATTCTATGGAACCTGTCCTCCAGTGACCACTTGAAGGACCGCCTCGCCCGAGATACACTGGAGCAGCTCACAGATCTGGTGCTAAGCCCCCTGTCAGGGGCAGGCGGGCCCCCCCTCATCCAGCAGAATGCTTCTGAGGCAGAGATCTTCTACAATGCTACTGGCTTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015152:ENSRNOT00000020864:6
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=0.034
Domain overlap (PFAM):
C1:
PF0051418=Arm=PD(80.5=47.8),PF0051418=Arm=PU(80.5=47.8)
A:
NA
C2:
PF0051418=Arm=PD(17.1=11.9)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]