RnoINT0112262 @ rn6
Intron Retention
Gene
ENSRNOG00000011317 | Pkn2
Description
protein kinase N2 [Source:RGD Symbol;Acc:620146]
Coordinates
chr2:248756736-248758335:-
Coord C1 exon
chr2:248758205-248758335
Coord A exon
chr2:248756812-248758204
Coord C2 exon
chr2:248756736-248756811
Length
1393 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TTTAATCATTGCTGTTACAGATC
3' ss Score
8.53
Exon sequences
Seq C1 exon
GGTTCAGAAACTGTTTTCGATATTGAGAATGACAGAAATAACATGCGTCCAAAATCCAAATCTGAATATGAGCTTAACATTCCTGACTCAAGTCGAAGCTGTTGGAGTGTTGGAGAACTTGAGGACAAGAG
Seq A exon
GTGAGGGATGCGTGGTCACAGTGCTTTGCTGCCCTGGGCCGGTGTCTGTAGTTGAATTGATCGCCTCATTTTTTTATTTTTATTTATTTATTTACTTGATTTTACACTCTAGATTTTATTCTCCTCCGAGTCTACCCTCCAACTGTTCCATATCCCATATCTCCTCCCACCACCCCTGTCCCCATGAGGATGTCACCACCCCACCCACCCCACCAGACCTCTAAACTCCCTGGGGCCTCCAGTCTCTTGAGGGTTAGGTGCATCTTCTCTGACTAAACCCAGACCCTGGAGTCCTCTGCTATATTTGTGTTGGAGGCTTCATCTCATGCTGTCTGGCTGGTGATCCAGAGTCTGAGGGATCTCAGGAGTCCAGGCTAATTGAGACCGCTCACCTGTTTCCATTCTTTCTGCTGGCCCTCAGGCTTCAGTCCTTTTCCTCCCCACCCAATACCAGATCATATTCCCCTCTCCTCCCATGCCTCCTTTGCTCCCCTCTTGTGGTTGCTTTCTTCACCCTCTAAAGTGGAACTGAGGGATCCTCAATTGTGCCCTTGAGCTTGTTGACCTTTTTGAGTTCTGTGACTGTATCTTGGGGATTCTGTACTGTTTTTTTCTTCTTTTTTGGCTAATATCCTCTTATTAGTGAGTACATACCATGCTTGTCCTTTTGAATCTGAGTTACCTCACTCAGGATGATATTTTCTAGTTCCATCCATTTGCCTGCAAAACTCAGGATGTCCTTGTTCTTAATAGCTATGGCTACATTTTCTGTATCCATTCTTCTGTCGTGGGACATAGGGGTTCTTTCCACCTTCTGGCTATCATAAATAAGGCTGCTATGAACATAGTGGCATGGTGGGGCATCTTTGGGGTATATTCCCAAGAGTGATATTGCTGGGTCTTTAGGTAGATCTATTTCCAGTTTTCTGAGGAACCTCCAAATTGATTTCCAGTATGATTTTATCAGTTTGCAATCCCACCAACAATGAGGGAGTGTTCCTTTTCACATCCTCGCCAACATGTGTTATCACCTGAGGTTTTGATCTTAGCCATTCTGATTGGTGTGAGGTAGAATCTCAGGGTCATTTTGATTTACATTTCTCTGTTCACTAAGGACTTTGAACATGTCTTTAGGTGCTTGTTATCCATTCAAGAGTCCTCTGTTATGAATTCTTGGTTTAGTTCTATATCCCAGTTTTTAATAGGGTCATTTGTTCTTTTGGTGTTTAGCTTCTTGAGTTCTTTATATATTTTGGATATTAGCCCTCTCTCGGATATGAGGTTAGTGAAGATTTTTTTTTTCCCAATCTGTAGATTGCCGATTTGTCTTATTGACTATGTCTTCTGCCTCACTGAAGCTTGATTGCCTCACTTTTAATCATTGCTGTTACAG
Seq C2 exon
ATCTCAACAGAGGTTTCAGTTTAATCTACAAGACTTCAGGTGCTGTGCTGTCTTGGGGAGAGGACACTTTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011317:ENSRNOT00000031748:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.466 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(5.0=50.0)
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:
GGTTCAGAAACTGTTTTCGATATTGA
R:
TTTCCAAAGTGTCCTCTCCCCA
Band lengths:
206-1599
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]