DreINT0016701 @ danRer10
Intron Retention
Gene
ENSDARG00000101293 | PKN2 (1 of 2)
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr6:25338495-25338815:-
Coord C1 exon
chr6:25338672-25338815
Coord A exon
chr6:25338571-25338671
Coord C2 exon
chr6:25338495-25338570
Length
101 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCTT
5' ss Score
3.62
3' ss Seq
TCTCCACCTTTTGGTTGCAGGTT
3' ss Score
9.4
Exon sequences
Seq C1 exon
TCTCGTGAGCTGGAGATTGCTGTGTATTGGAGAGACTGGCGCTCGCTGTGTGCAGTGAAGTTTTTACGTCTAGAGGACTTCCTGGATAACCAACGGCACGGCATGTGCCTCTACCTGGAACCACAAGGAACACTGTTTGCCGAG
Seq A exon
GTGCTTGAATTTTTTTCTTCACCAACCAACATGCATTATATAAGACTGATGGCCTTGTTGAGGACAATTTTATTAAGATTATCTCCACCTTTTGGTTGCAG
Seq C2 exon
GTTACATTTTTTAACCCAGTCATTGAGAGGCGACCCAAACTACAAAGACAAAAGAAAATCTTCTCCAAACAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101293:ENSDART00000169030:9
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=0.038
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTCGTGAGCTGGAGATTGCTG
R:
CTTGCTGTTTGGAGAAGATTTTCT
Band lengths:
219-320
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]