RnoINT0112246 @ rn6
Intron Retention
Gene
ENSRNOG00000004131 | Pkn1
Description
protein kinase N1 [Source:RGD Symbol;Acc:69308]
Coordinates
chr19:24804705-24805200:-
Coord C1 exon
chr19:24805124-24805200
Coord A exon
chr19:24804848-24805123
Coord C2 exon
chr19:24804705-24804847
Length
276 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
TTGCTCTCCATCCCACCCAGGGA
3' ss Score
7.22
Exon sequences
Seq C1 exon
GGACCTGAAGTTGGACAATTTGCTCCTGGATACTGAGGGCTACGTCAAGATCGCAGACTTTGGCCTCTGCAAGGAGG
Seq A exon
GTGAGGGGCTGCAATCCTGGGATGAGAGGAATAGGGGGTGGGCTACCGTCTGGTGCAGCTGTACCTGGGTGGTCAGATGACATTTTCTTCTCTATGGGCTTTGCTGTCAGCCACCTGCTCACCCTAGCAGCTTCAGGATAGTTCGCCAGCTCTAGCCCCATCTGGGTCACCCCATACTGACTCGGGGTAGGGCTGGCTGGATGTTTGGAGTATCTCATGCTCCTGCTTCCCTTAGCTACTATAGGCTCACATGGCCTTGCTCTCCATCCCACCCAG
Seq C2 exon
GGATGGGCTATGGGGACCGGACCAGCACATTCTGCGGAACTCCGGAGTTCCTGGCGCCGGAAGTGCTCACAGACACATCCTACACTCGAGCCGTGGACTGGTGGGGACTGGGTGTATTGCTCTATGAGATGCTGGTTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004131:ENSRNOT00000005770:18
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(10.0=100)
A:
NA
C2:
PF0006920=Pkinase=FE(18.1=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:
GGACCTGAAGTTGGACAATTTGC
R:
CTCTCCAACCAGCATCTCATAGA
Band lengths:
220-496
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]