RnoINT0112274 @ rn6
Intron Retention
Gene
ENSRNOG00000011317 | Pkn2
Description
protein kinase N2 [Source:RGD Symbol;Acc:620146]
Coordinates
chr2:248779402-248779851:-
Coord C1 exon
chr2:248779706-248779851
Coord A exon
chr2:248779616-248779705
Coord C2 exon
chr2:248779402-248779615
Length
90 bp
Sequences
Splice sites
5' ss Seq
GAAGTAATT
5' ss Score
3.7
3' ss Seq
TCTTCTCTTTTCCAAACAAGGCC
3' ss Score
5.3
Exon sequences
Seq C1 exon
CAAAACCTGTGATAAGCCCTCTTGAGCTTCGAATGGAAGAATTAAGACATCATTTTAGGATAGAATTTGCAGTAGCCGAAGGTGCAAAGAATGTCATGAAATTACTTGGCTCAGGAAAAGTAACAGACAGAAAAGCGCTTTCAGAA
Seq A exon
GTAATTTTAAAAATAATTTTTAGCTGTTTATTATGTTATTTGAAGAATATCCTGGCTTAAATGATGACAATCTTCTCTTTTCCAAACAAG
Seq C2 exon
GCCCAAGCAAGATTTAATGAATCAAGTCAGAAGTTGGACCTTTTAAAATATTCACTAGAGCAGAGGTTAAATGAACTCCCCAAGAATCACCCCAAAAGCAGTGTCGTCATTGAGGAGCTCTCCCTTGTTGCATCGCCAACCCTGAGTCCACGACAGAGTATGCTGTCCACGCAGAACCAGTACAGCACACTGTCCAAGCCAGCAGCACTAACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011317:ENSRNOT00000031748:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.283
Domain overlap (PFAM):
C1:
PF0218511=HR1=PU(53.4=79.6)
A:
NA
C2:
PF0218511=HR1=PD(43.8=44.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGACAGAAAAGCGCTTTCAGA
R:
CTCTGTCGTGGACTCAGGGTT
Band lengths:
182-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]