RnoINT0112316 @ rn6
Intron Retention
Gene
ENSRNOG00000015152 | Pkp3
Description
plakophilin 3 [Source:RGD Symbol;Acc:1309133]
Coordinates
chr1:213896823-213897196:+
Coord C1 exon
chr1:213896823-213897015
Coord A exon
chr1:213897016-213897108
Coord C2 exon
chr1:213897109-213897196
Length
93 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
CCCTCTTGGAATGCCCACAGCCC
3' ss Score
6.6
Exon sequences
Seq C1 exon
CCACAAAGGTAGTGAGCCACCTGATTGAGAAGCTTCCTGGTAGTGTGGGTGAGAAGTGTCCCCCGGCTGAGGTGCTGGTCAACATCATAGCTGTGCTCAACAACCTGGTAGTAGCCAGCCCTATTGCTGCCCGAGACCTGCTCTACTTCGATGGACTCCGAAAACTGGTATTCATCAAAAAGAAGAGGGATAG
Seq A exon
GTAAGGACCAAACAGCCCACAGCAACACGGCCAAGGTATACACACCCATCCTACCTCCTAGTCTTGACCCTGACCCTCTTGGAATGCCCACAG
Seq C2 exon
CCCTGACAGTGAGAAGTCATCCCGGGCAGCCTCCAGCCTCTTGGCCAACCTCTGGCAGTACAGCAAGCTCCACCGTGACTTCCGGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015152:ENSRNOT00000020864:12
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=0.100
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:
GCTGTGCTCAACAACCTGGTA
R:
GAGCTTGCTGTACTGCCAGAG
Band lengths:
174-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]