RnoINT0112247 @ rn6
Intron Retention
Gene
ENSRNOG00000004131 | Pkn1
Description
protein kinase N1 [Source:RGD Symbol;Acc:69308]
Coordinates
chr19:24804340-24804847:-
Coord C1 exon
chr19:24804705-24804847
Coord A exon
chr19:24804448-24804704
Coord C2 exon
chr19:24804340-24804447
Length
257 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CGGCTTTTTCTGCCCCACAGTCT
3' ss Score
9.01
Exon sequences
Seq C1 exon
GGATGGGCTATGGGGACCGGACCAGCACATTCTGCGGAACTCCGGAGTTCCTGGCGCCGGAAGTGCTCACAGACACATCCTACACTCGAGCCGTGGACTGGTGGGGACTGGGTGTATTGCTCTATGAGATGCTGGTTGGAGAG
Seq A exon
GTGAGTCTGGGCTGCCTTTCTTCTGTAGAGAACATACATGTGCCTCAGAGTGAAATGGGAGTCTGCTCCTACCATGAAATATGATCTGGAGCCACCAGCTCTACCTCTCTGATCTGTTTCCATAATTGTAAAGTGGGATACTCACCCCCTGTAAGCTAGCAGTGGTACCAGAGTGCCCCAGAGGGGTGGGGTCCTTCGGTAATGCTGGACTGGCTAAAGGTGGGATCTTACAAAACCCGGCTTTTTCTGCCCCACAG
Seq C2 exon
TCTCCGTTCCCTGGGGACGACGAGGAGGAAGTATTTGACAGCATCGTCAATGATGAGGTTCGTTATCCCCGCTTCCTGTCTGCGGAGGCCATCGGCATCATGAGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004131:ENSRNOT00000005770:19
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=0.028
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(18.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(13.5=100)
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:
GACCGGACCAGCACATTCTG
R:
CCTTCTCATGATGCCGATGG
Band lengths:
237-494
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]