DreINT0115001 @ danRer10
Intron Retention
Gene
ENSDARG00000079585 | pkn3
Description
protein kinase N3 [Source:ZFIN;Acc:ZDB-GENE-030131-1902]
Coordinates
chr5:31234798-31235044:-
Coord C1 exon
chr5:31234975-31235044
Coord A exon
chr5:31234890-31234974
Coord C2 exon
chr5:31234798-31234889
Length
85 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
TCATTCGTGTCTCTCTGAAGGTC
3' ss Score
10.28
Exon sequences
Seq C1 exon
GAGGCAAGAAGGGATGCAGATGGAGGACTTTAACTGCATTTCTGTTTTAGGAAGAGGGCACTTTGGAAAG
Seq A exon
GTAAACCTGCAGATGTCCTTCTGTACTGTAATTGAATCATTGTGGATAGTGCCGATGTCTCAGTGTCATTCGTGTCTCTCTGAAG
Seq C2 exon
GTCCTTCTGGCTGAATTCAAGAGGACTGGGAAACTTTATGCCATCAAAGCCTTGAAAAAAGGGGATGTTGTGACCCGGGATGAAGTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079585:ENSDART00000112546:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(5.0=54.2)
A:
NA
C2:
PF0006920=Pkinase=FE(11.5=100)
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:
GGCAAGAAGGGATGCAGATGG
R:
CTGTCCACTTCATCCCGGGTC
Band lengths:
160-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]