DreINT0016693 @ danRer10
Intron Retention
Gene
ENSDARG00000101293 | PKN2 (1 of 2)
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr6:25325161-25325528:-
Coord C1 exon
chr6:25325421-25325528
Coord A exon
chr6:25325242-25325420
Coord C2 exon
chr6:25325161-25325241
Length
179 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
ACATTCTCTTTCTTATCCAGCTG
3' ss Score
9.85
Exon sequences
Seq C1 exon
TCCCCTTTCCCTGGTGATGATGAAGAGGAGGTGTTTGACAGTATAGTTAATGATGAAGTCCGCTATCCCAAATATCTCTCCACAGAAGCTATTTCCATAATGAGAAGG
Seq A exon
GTAAGTTCGGACAAGTCCTGTTCTGCTTTAAACCATTGACCCAAACTACACCTCATCTTATTCTTCATGACAACCCTTAAAATCCCAACATGGCTCTCTTAGAAAGATCCTTCTCTTTTGTAATCTCATATTAATTATCCAGCTAACTAATGTTTCTAAACATTCTCTTTCTTATCCAG
Seq C2 exon
CTGTTAAGGCGAAATCCAGAGCGGCGTCTTGGCGCAGGAGAACGAGATGCGGAGGAAGTAAAGAGGCATCCTTTCTTCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101293:ENSDART00000169030:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.185
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(13.5=100)
A:
NA
C2:
PF0006920=Pkinase=PD(9.6=92.6)
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:
TCCCCTTTCCCTGGTGATGAT
R:
TCTGAAGAAAGGATGCCTCTTT
Band lengths:
189-368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]