DreINT0115009 @ danRer10
Intron Retention
Gene
ENSDARG00000079585 | pkn3
Description
protein kinase N3 [Source:ZFIN;Acc:ZDB-GENE-030131-1902]
Coordinates
chr5:31230323-31230686:-
Coord C1 exon
chr5:31230606-31230686
Coord A exon
chr5:31230526-31230605
Coord C2 exon
chr5:31230323-31230525
Length
80 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACC
5' ss Score
6.54
3' ss Seq
AAAATAGTTCCTCTCCTCAGGGC
3' ss Score
7.34
Exon sequences
Seq C1 exon
CTGCTGCAGAAGAACTCTGAAAAACGACTGGGGGCAGGAGAGCAAGATGCCAACGAAGTCAAGAAACACCGTTTTTTCCAG
Seq A exon
GTGACCGTCACTAACAGTCATTTTTGTCCACTTTTTGTGAAGCTTCTCTTCTTTTCTAAAAAAATAGTTCCTCTCCTCAG
Seq C2 exon
GGCATTGACTGGGAGGCTCTGCTGGCCAAAAGAGTCAAACCTCCATTCCTGCCGTCAATTAAAACAGCAGCGGACGTCAGTAACTTTGACGAGGAGTTCACACGCCTCAAGCCTGTCCTGACTCCTCCACAGACGCCGTTCTTCCTTAGCGCCGAGCAGCAGGAGTTCTTTGCGGACTTCGACTTCTCTGCCCTGCACTGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079585:ENSDART00000112546:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=68.7)
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:
GGAGAGCAAGATGCCAACGAA
R:
GAGGAGTCAGGACAGGCTTGA
Band lengths:
172-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]