DreINT0114999 @ danRer10
Intron Retention
Gene
ENSDARG00000079585 | pkn3
Description
protein kinase N3 [Source:ZFIN;Acc:ZDB-GENE-030131-1902]
Coordinates
chr5:31235508-31235787:-
Coord C1 exon
chr5:31235685-31235787
Coord A exon
chr5:31235582-31235684
Coord C2 exon
chr5:31235508-31235581
Length
103 bp
Sequences
Splice sites
5' ss Seq
GGGGTTTGT
5' ss Score
1.06
3' ss Seq
GTTTTGGGACTTTCTGCCAGACT
3' ss Score
3.65
Exon sequences
Seq C1 exon
AGACTCAGCAGTTGTTAAACTGAATTTCAGCGAGGAACGGCCCACCAAGCCTCCGCGCCTTCACTTGGCGCAGAACCCTTCAGCTGATGAATCACTTTCTGGG
Seq A exon
GTTTGTTTTGTGGACAAACACTTGCTTTTTAATTTGTAGGGTTTCTTTTTATTGCTGTGGTCGAGTTAAAGTGGTAATTATGTGTTTTGGGACTTTCTGCCAG
Seq C2 exon
ACTCCTGCCAGAGTAAACTCCACTGAGGACCGCCGAGTTCTCCAAGCCAGGCCTGCGTCCCAGCCTACAACTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079585:ENSDART00000112546:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.971 A=NA C2=1.000
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
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAATTTCAGCGAGGAACGGC
R:
GAGTTGTAGGCTGGGACGCA
Band lengths:
156-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]