DreINT0016689 @ danRer10
Intron Retention
Gene
ENSDARG00000101293 | PKN2 (1 of 2)
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr6:25328378-25328607:-
Coord C1 exon
chr6:25328545-25328607
Coord A exon
chr6:25328455-25328544
Coord C2 exon
chr6:25328378-25328454
Length
90 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TTGTGGACTTTCTTCTGCAGGGA
3' ss Score
9.83
Exon sequences
Seq C1 exon
TTTTTATGCTGCTTGTGTCGTCCTGGGCCTGCAGTTTCTGCATGACCATAAAATAGTGTACAG
Seq A exon
GTATGTGTCACTCCAGAATGCAAAAAAAAAAAGAAGGCTTCACCAATGTTTTATGAACTGCATGTGACTATTGTGGACTTTCTTCTGCAG
Seq C2 exon
GGATTTGAAGCTAGATAACCTTTTGCTAGACACTGAGGGATATGTCAAGATTGCAGATTTCGGTCTCTGCAAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101293:ENSDART00000169030:17
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(8.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(10.0=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:
TATGCTGCTTGTGTCGTCCTG
R:
TTCTTTGCAGAGACCGAAATCTG
Band lengths:
135-225
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]