DreINT0016690 @ danRer10
Intron Retention
Gene
ENSDARG00000101293 | PKN2 (1 of 2)
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr6:25328152-25328454:-
Coord C1 exon
chr6:25328378-25328454
Coord A exon
chr6:25328295-25328377
Coord C2 exon
chr6:25328152-25328294
Length
83 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAT
5' ss Score
7.24
3' ss Seq
TCTTTGCATCTGTCATGCAGGAA
3' ss Score
7.9
Exon sequences
Seq C1 exon
GGATTTGAAGCTAGATAACCTTTTGCTAGACACTGAGGGATATGTCAAGATTGCAGATTTCGGTCTCTGCAAAGAAG
Seq A exon
GTAGATGATGGATTTGTGTCACCATTGATACTGAGAGTTGATTGTCAGTACTGCGACTGTAACTCTTTGCATCTGTCATGCAG
Seq C2 exon
GAATGGGCTTTAAAGACCGTACTAGTACGTTCTGTGGCACTCCTGAGTTCTTGGCACCTGAAGTTTTAACCGAGACGTCGTACACTCGAGCGGTGGACTGGTGGGGTCTCGGAGTGCTCATCTTTGAGATGCTGGTTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101293:ENSDART00000169030:18
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTTTGCTAGACACTGAGGGA
R:
AAGATGAGCACTCCGAGACCC
Band lengths:
183-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]