DreINT0016685 @ danRer10
Intron Retention
Gene
ENSDARG00000101293 | PKN2 (1 of 2)
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr6:25332386-25332774:-
Coord C1 exon
chr6:25332653-25332774
Coord A exon
chr6:25332462-25332652
Coord C2 exon
chr6:25332386-25332461
Length
191 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTC
5' ss Score
6.8
3' ss Seq
AAATGTTTGTGTGCCTTCAGGGA
3' ss Score
8.48
Exon sequences
Seq C1 exon
GATGCCCTCGCGACCTTTGACTTCCTGAACAACACAGTAGCAAAACCAGATTATGACAGTCTGGTTGAACATGAGCAGCCTGGCTTGGAACTTACTGAAATTCAGCGAAAAACTGAAATAAG
Seq A exon
GTATTCTCTTTCCCATCACCATGATGATACTGTTAAAACATGCATATAGTAATGCATGTAGTAATACACTGGAATGCATTTGTCGTTTTCAAGTTAAATTGAATAGATTGCACAAGTGATTTGAACCTAAATGGACTTAAATACATACAGTATTATCTTACATCGTGTATCAAATGTTTGTGTGCCTTCAG
Seq C2 exon
GGAAGAAGAGGAAGTTCAGTTCAGTTTGTCAGATTTTAAATGTGTAGCTGTTCTGGGACGTGGCCACTTTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101293:ENSDART00000169030:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.341 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
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:
CCCTCGCGACCTTTGACTTC
R:
CTTTCCAAAGTGGCCACGTCC
Band lengths:
194-385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]