GgaINT1021765 @ galGal4
Intron Retention
Gene
ENSGALG00000004689 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:HGNC:17999]
Coordinates
chr17:5231374-5231808:+
Coord C1 exon
chr17:5231374-5231468
Coord A exon
chr17:5231469-5231741
Coord C2 exon
chr17:5231742-5231808
Length
273 bp
Sequences
Splice sites
5' ss Seq
TCGGCAAGA
5' ss Score
2.78
3' ss Seq
TCTTGTTTGTTTGTCTGCAGGAA
3' ss Score
11.19
Exon sequences
Seq C1 exon
GAAAGGAGTGTTGGCAAATCTGAATTTTACTCCAAGGATGGGGGATGCAGGAGAACTAATTCTGTTACGGGATGTAACAGAGAGAGCAAGCCTCG
Seq A exon
GCAAGATAGAGTTAATGCTCTTGTTGCCCATACAGATGGAAGGCAGAGACTGCTACCACTGGGAGCAGTTTTCTTAACTGATAGTTATCTGATCGTTTCTTCAGTGGCAGAACAGCAGGCCTAACTTCTCAGGATTTCAGCCTAGGTGGCCGGTATTCACCTTGCCTTTTGCTGTAATGAGCTTTTTCCTCTAATACAAATACACACTTGTTTGCATTCTGTTTCTGTATCTTTTGTATATTGTTGTAGCAAATCTTGTTTGTTTGTCTGCAG
Seq C2 exon
GAAAGGGGCAGTTCATCTTGAGGATTTTCACTGCATCGCCATGCTGGGACGTGGCCACTTTGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004689:ENSGALT00000007470:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.188 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(5.0=56.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGTGTTGGCAAATCTGAA
R:
CTTCCCAAAGTGGCCACGTC
Band lengths:
159-432
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]