DreINT0114953 @ danRer10
Intron Retention
Gene
ENSDARG00000060184 | pkn1a
Description
protein kinase N1a [Source:ZFIN;Acc:ZDB-GENE-061207-17]
Coordinates
chr1:45131033-45131389:+
Coord C1 exon
chr1:45131033-45131176
Coord A exon
chr1:45131177-45131313
Coord C2 exon
chr1:45131314-45131389
Length
137 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCAC
5' ss Score
2.13
3' ss Seq
GTACCATCTGTTTGCCTCAGGTT
3' ss Score
8.48
Exon sequences
Seq C1 exon
TCCAGAGAGATGGAGATTGCCGTGTACTGGAGAGACTACCGCTCTCTGTGTGCGCTGAAATTTCTCAAGCTGGAGGATTTCTTGGACAACCAGAAACACAAAGTACAACTAGAGCTAGAACCACAGGGACTGCTGCTGGCAGAG
Seq A exon
GTGCACACTCAACATAACATGTTTCCTGTGTGTTATAAAGAGAGAAATCACATCACAGCCAAATCAAATAAATGTGCTGTAATCATCAGTGTTCACCAATGGGCTGAGTGTATATGTGTACCATCTGTTTGCCTCAG
Seq C2 exon
GTTACTTTCTTTAACCCTGTGATTGAGAGGGTTCCACGGCTAAAACGGCAGAAGAATGTTTTCTCCAAGCAGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060184:ENSDART00000132555:9
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGAGAGATGGAGATTGCCG
R:
CCTGCTGCTTGGAGAAAACAT
Band lengths:
219-356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]