RnoINT0112245 @ rn6
Intron Retention
Gene
ENSRNOG00000004131 | Pkn1
Description
protein kinase N1 [Source:RGD Symbol;Acc:69308]
Coordinates
chr19:24805124-24805376:-
Coord C1 exon
chr19:24805314-24805376
Coord A exon
chr19:24805201-24805313
Coord C2 exon
chr19:24805124-24805200
Length
113 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
CCTGACACCCCATTCCCCAGGGA
3' ss Score
6.05
Exon sequences
Seq C1 exon
CTTCTATTCGGCCTGTGTGGTGCTGGGACTGCAGTTCCTCCATGAACACAAGATTGTCTACAG
Seq A exon
GTGTGTATGTGAGAACATGTTCTGCCCACAGACTGGACATGGTCAAGCTCTGCACAAAGCCCCGATCCCTACCCAGTCACCCTCTTTACATCCCCTGACACCCCATTCCCCAG
Seq C2 exon
GGACCTGAAGTTGGACAATTTGCTCCTGGATACTGAGGGCTACGTCAAGATCGCAGACTTTGGCCTCTGCAAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004131:ENSRNOT00000005770:17
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:
PF0006920=Pkinase=FE(8.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(10.0=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:
TTCTATTCGGCCTGTGTGGTG
R:
CTCCTTGCAGAGGCCAAAGTC
Band lengths:
138-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]