RnoINT0112321 @ rn6
Intron Retention
Gene
ENSRNOG00000015152 | Pkp3
Description
plakophilin 3 [Source:RGD Symbol;Acc:1309133]
Coordinates
chr1:213891780-213892839:+
Coord C1 exon
chr1:213891780-213891903
Coord A exon
chr1:213891904-213892634
Coord C2 exon
chr1:213892635-213892839
Length
731 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACA
5' ss Score
5.49
3' ss Seq
CATGTATATATGTGCCACAGGCT
3' ss Score
5.91
Exon sequences
Seq C1 exon
CTTTGATGACATTGACCTGCCTTCAGCAGTCAAGTACCTCATGGCCTCAGACCCCAACCTGCAGGTGCTGGGGGCGGCTTACATCCAGCACAGATGCTACAGTGATGCAGCAGCCAAGAAGCAG
Seq A exon
GTGACAAATCCCAAATCCTGCTGTCTCTTGATGACTGTCCCACTGGCCCCAATGCCCCCGACGACTATCCTCACCAGCTCCTTAGCCCTGCTTGCTAATCACTAGGCTGGCTGGGCAAACCTCACCTTTTCATATCATCAGCAAAGAAAGGGCAGAAATGCCCTATTTGTATACACTCGCATCACCAATGTGTGTGTGTGTGTATACATATATACATACATATATATACACATACATATATACATACTATATATATGCATACATACATACTATATATACATATATATGCATATATACACATTACCTACATACGTATGCACTTAGTTCCATGCTTGTGAACATGTCTGCATGCATGTTCACGGTCTGCATTTGCCCACATACACCTGTATATATGTGTATACACACACACAAACACATACACTCACACTCACACACACACGCATCACCTGCATACATATACATCATATAGACATACCTGTGGCACATCTATGCTGCATCATCTCCAAATGCCTGAATACGCATGCCCAATCCTGTATACGCCTGTAGCATAGTCACCATGTCCATACACCTGCACCCCCGATGCTTGCCTGCATTGTGTACAGACCCACCTCTCGCCTGTATTGTCTGGATTACCTATACACATATGCACTTAGTTCCATGCTTGTGGACATGTCTGCATGCATGTTCACAGTCCGCCTATGCCCACATACACATGTATATATGTGCCACAG
Seq C2 exon
GCTCGCAGCCTCCAGGCAGTGCCGAGACTGGTGAAGCTCTTCAACCACGCCAACCAGGAGGTGCAGCGCCATGCCACCGGTGCCATGCGCAACCTCATCTATGACAACGTGGACAACAAACTGGCCTTGGTGGAGGAGAATGGCATCTTTGAGCTGTTGAGGACGCTTCGAGAGCAGGACGATGAGCTGCGCAAAAATGTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015152:ENSRNOT00000020864:5
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=0.000
Domain overlap (PFAM):
C1:
PF0051418=Arm=PU(14.6=14.3)
A:
NA
C2:
PF0051418=Arm=PD(80.5=47.8),PF0051418=Arm=PU(80.5=47.8)
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:
TGATGACATTGACCTGCCTTCA
R:
CAGCTCATCGTCCTGCTCTC
Band lengths:
310-1041
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]