RnoINT0112242 @ rn6
Intron Retention
Gene
ENSRNOG00000004131 | Pkn1
Description
protein kinase N1 [Source:RGD Symbol;Acc:69308]
Coordinates
chr19:24806628-24806884:-
Coord C1 exon
chr19:24806809-24806884
Coord A exon
chr19:24806720-24806808
Coord C2 exon
chr19:24806628-24806719
Length
89 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATG
5' ss Score
5.22
3' ss Seq
CTGTGTCCTCTGTGTGCCAGGTG
3' ss Score
10.79
Exon sequences
Seq C1 exon
TCCCCTGAGGAAGTCGCCCCTGACGCTTGAGGACTTCAAGTTCCTGGCAGTGCTTGGTCGGGGTCACTTTGGAAAG
Seq A exon
GTGATGCAGTGGGAGAACTTAGGGGCTCAGGGTTTTCACCCCAAGGGCCTAGGCTGTCCACTGAGGCCCCTGTGTCCTCTGTGTGCCAG
Seq C2 exon
GTGCTGCTGTCTGAATTCCACTCCAGTGGGGAGCTCTTTGCCATTAAAGCCTTGAAGAAAGGTGACATTGTAGCCCGGGATGAGGTTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004131:ENSRNOT00000005770:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(5.0=50.0)
A:
NA
C2:
PF0006920=Pkinase=FE(11.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCCTGAGGAAGTCGCC
R:
TCTCAACCTCATCCCGGGCTA
Band lengths:
167-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]