RnoINT0112260 @ rn6
Intron Retention
Gene
ENSRNOG00000011317 | Pkn2
Description
protein kinase N2 [Source:RGD Symbol;Acc:620146]
Coordinates
chr2:248758729-248759243:-
Coord C1 exon
chr2:248759069-248759243
Coord A exon
chr2:248758856-248759068
Coord C2 exon
chr2:248758729-248758855
Length
213 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
ATTGCTTTGTCTTCTATAAGTGA
3' ss Score
4.13
Exon sequences
Seq C1 exon
GCAAAACATTTCTCAGAGCCCCTCAAATGAATATTAATATTGCCACTTGGGGAAGGCTAGTGAGACGAGCTATTCCCACAGTAAATCATTCTGGCACGTTCAGCCCTCAGACTCCTGTGCCCGCTACAGTGCCAGTGGTGGATGCACGCACTCCTGAACTCGCACCTCCAGCCAG
Seq A exon
GTACTTGTCTTAGAAGGCTTGAGTATATTTTACATAGCCATTGCTATGATGTCTAACATGTGTTACAATGGTTGTGTTCAGTCCCAGTCTTTCTAAGTAGAATTGCAAAACTATTGCTCCTTGTTTAAAATAAGTTAGTTTGCTTTTATTTTGCAGCTTCTTAAAAATAAAGACTTTATTTCAGTTTCAGTAAATTGCTTTGTCTTCTATAAG
Seq C2 exon
TGATTCTACAGTAACCAAATTGGACTTTGATCTTGAACCTGAAGCTCCTCCAGCCCCACCACGTGCTTCTTCCCTTGGAGAGATAGATGACTCTTCTGAATTGAGAGTTTTGGATATACCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011317:ENSRNOT00000031748:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.508 A=NA C2=0.740
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAAACATTTCTCAGAGCCCC
R:
TGTCCAGGTATATCCAAAACTCTCA
Band lengths:
301-514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]