RnoINT0112267 @ rn6
Intron Retention
Gene
ENSRNOG00000011317 | Pkn2
Description
protein kinase N2 [Source:RGD Symbol;Acc:620146]
Coordinates
chr2:248743158-248744133:-
Coord C1 exon
chr2:248744057-248744133
Coord A exon
chr2:248743301-248744056
Coord C2 exon
chr2:248743158-248743300
Length
756 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
CTTGAATTTAACTTCTTCAGGAA
3' ss Score
6.02
Exon sequences
Seq C1 exon
AGACTTGAAGTTGGATAACCTGTTGCTGGATACAGAAGGCTTCGTGAAGATTGCTGACTTTGGTCTTTGCAAAGAAG
Seq A exon
GTAATTGAGCTCTGTAAATTCCTTTTCTAATAGATCGTTGTTCCTTTGTACTTTGGTAGTTTTCAAATTTGTGTATGAAAACAATATATTTTTTATTTTATTCCACTACAACATTTGGATTGCTTATATATGTACCAGTAACCACATTAAGATTTTGTCCTGTGGATATAAATACGTGCTGCTTCCAGACACTACAGTATGAGAGTCAGCCTCTCTCCGTATGGCTGACGGTCTGCCAGTACTTTAAGGAGGCGCTAAGTACCAGCTTGTTGATTGGGACTGTACAGAACGATGTGCTCGTGCCTAGTGACTTCACCAGGCATAGAGCTGTCAACATTTTACATTAGAAAGAATAGGTGTAACTATCTCAGATTGTTTTCTATACATTCAGAATTAAATATGACAGTTCAAATCAAAGATCACAGGAGAAGATATAAAGATGAATGTTATAAGACTTTCTTCTCTTTATCCTGAATGTTATAACCAATATATCCTTTCTTCTTTGTACACTAGTAACTTTATTCTGTTGCTTATTATTATCTGTTTCCGTACTACATAAACACTGTTCTTAGATATATTAGTATTAGTGGATGTTTAATGAGTCAGTAATTTGATAGGTAAAACAAATTTGCTAAGTCTCGGATGCTCGAGTTTTATCACTATATTTGGCAATGTCAGTTTTTTTTCCTAAGCACACCTTCTAATTTTCATGCTAAGGTTTTTTTCTTTGCTAATACTTGAATTTAACTTCTTCAG
Seq C2 exon
GAATGGGGTATGGAGATAGGACAAGCACATTTTGTGGTACTCCTGAATTTCTTGCCCCAGAAGTATTAACAGAAACGTCGTACACAAGGGCTGTAGATTGGTGGGGCCTTGGCGTACTTATATATGAAATGCTCGTCGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011317:ENSRNOT00000031748:18
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
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGTTGGATAACCTGTTGCTGGA
R:
CTCTCCGACGAGCATTTCATA
Band lengths:
214-970
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]