RnoINT0112323 @ rn6
Intron Retention
Gene
ENSRNOG00000015152 | Pkp3
Description
plakophilin 3 [Source:RGD Symbol;Acc:1309133]
Coordinates
chr1:213894854-213895631:+
Coord C1 exon
chr1:213894854-213895028
Coord A exon
chr1:213895029-213895513
Coord C2 exon
chr1:213895514-213895631
Length
485 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
TGATCTGCCTCCATCCCCAGGAA
3' ss Score
10.95
Exon sequences
Seq C1 exon
GGATTCTATGGAACCTGTCCTCCAGTGACCACTTGAAGGACCGCCTCGCCCGAGATACACTGGAGCAGCTCACAGATCTGGTGCTAAGCCCCCTGTCAGGGGCAGGCGGGCCCCCCCTCATCCAGCAGAATGCTTCTGAGGCAGAGATCTTCTACAATGCTACTGGCTTCCTCAG
Seq A exon
GTGTGCTAAGTGGGCCAGGAGATGCTGAGGGGAGAGAGGCCGGTGCCAGAGAAGGATTAGAGAAACTTCGAGCAGAAGCATGTTCGTTTACCACCCAGTTGACAAGAACAGTTAGCCAAGCCCACTGGGAGACATAAATGGCAGAAAAAGTTTAGGGGCCGAAGCAAGAGTGGGATGGGCAGAACACCCTGGGGCTTATGATTCACTGAATCAAGTCTCTTGCCCTGACATCCATCTTCCTAAACTGAGGAGTTAGTTGGGGGATGGGTATGTGAAGGGTAGGCCCAGAAGCATCTGGTAAGGTCCAGGAACAGAAGGGCACAGGGGCCAGTGCCAACTCAGAAGGGAAAGACCGGTTAGTGCCTGATGATTTCACCTCCAGGACAGAGGCTTCAGGTTGAGGCTCCCTGAGGTGGCACTTCGAGGCTCCCTGAGGGGACTGTGTTGGTATCCCTGGGGAACCTCTGATCTGCCTCCATCCCCAG
Seq C2 exon
GAACCTCAGCTCAGCCTCCCAGGCCACTCGCCAGAAGATGCGTGAGTGCCATGGGCTAGTGGATGCTCTGGTCACCTACATCAACCATGCCCTGGACGTGGGCAAGTGTGAGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015152:ENSRNOT00000020864:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0051418=Arm=PD(17.1=11.9)
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:
TGTCCTCCAGTGACCACTTGA
R:
CTTGTCCTCACACTTGCCCAC
Band lengths:
278-763
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]