GgaINT0124759 @ galGal4
Intron Retention
Gene
ENSGALG00000004689 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:HGNC:17999]
Coordinates
chr17:5230180-5230409:+
Coord C1 exon
chr17:5230180-5230256
Coord A exon
chr17:5230257-5230328
Coord C2 exon
chr17:5230329-5230409
Length
72 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
GCTGAAATTTTTGAGCATAGACT
3' ss Score
-2.1
Exon sequences
Seq C1 exon
TGTCTGAAGAGGCTGCATGTTGAGGAGAAGACTTGCAACTCTGCTTTAACGGGATTTGCAATCCAGGCATCTCCAAG
Seq A exon
GTAACAGTGGGCAGCATGAGATGTCTTGGGTCACAGATTAAAGAAGCACTGGGCTGAAATTTTTGAGCATAG
Seq C2 exon
ACTACAAAAATTCTACTTAAGATATGCTTTGGTTTCTCAGCAGCAGATTCTTATTGCTGGGAGTGGGCAATACCATGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004689:ENSGALT00000007470:20
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGAGGCTGCATGTTGAGG
R:
TCATGGTATTGCCCACTCCCA
Band lengths:
151-223
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]