RnoINT0112241 @ rn6
Intron Retention
Gene
ENSRNOG00000004131 | Pkn1
Description
protein kinase N1 [Source:RGD Symbol;Acc:69308]
Coordinates
chr19:24806809-24807036:-
Coord C1 exon
chr19:24806957-24807036
Coord A exon
chr19:24806885-24806956
Coord C2 exon
chr19:24806809-24806884
Length
72 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATA
5' ss Score
4.58
3' ss Seq
ACAGCTCTCTTTCTCCACAGTCC
3' ss Score
10.62
Exon sequences
Seq C1 exon
AGTTCTCCAACCCACGAATCCACCACCTCTCCAGAGCTGCCTTCAGAGACCCAGGAGACCCCAGGCCCTGGCCTGTGCAG
Seq A exon
GTGATACCCCTCCCTAGTCCCTACCTGTGCCCTGCACCCCCTCCAAGTCCCCACAGCTCTCTTTCTCCACAG
Seq C2 exon
TCCCCTGAGGAAGTCGCCCCTGACGCTTGAGGACTTCAAGTTCCTGGCAGTGCTTGGTCGGGGTCACTTTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004131:ENSRNOT00000005770:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.077
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(5.0=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTCCAACCCACGAATCCAC
R:
CTTTCCAAAGTGACCCCGACC
Band lengths:
154-226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]