DreINT0047625 @ danRer10
Intron Retention
Gene
ENSDARG00000059870 | clk2b
Description
CDC-like kinase 2b [Source:ZFIN;Acc:ZDB-GENE-060929-1126]
Coordinates
chr16:54659935-54660228:-
Coord C1 exon
chr16:54660099-54660228
Coord A exon
chr16:54660018-54660098
Coord C2 exon
chr16:54659935-54660017
Length
81 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
CTCTGTCTGTGTTTCTGTAGAGC
3' ss Score
10.27
Exon sequences
Seq C1 exon
AAGCGTGACGAGCGCTCCGTGAACAGCACTGCAGTGAGGATTGTGGATTTCGGCAGCGCCACCTTTGACCACGAGCATCACAGCAGCATCGTCTCCACACGACACTACAGAGCGCCAGAGGTCATTCTGG
Seq A exon
GTAAGAGAGCATATCCAGTGTGTGTGTGTGTGTGTGCGCGTGTGTGTGTGTGTGTGTGACTCTCTGTCTGTGTTTCTGTAG
Seq C2 exon
AGCTGGGCTGGAGTCAGCCGTGTGACGTCTGGAGTATCGGCTGTATACTGTTTGAGTTCTACTGCGGATACACACTCTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059870:ENSDART00000083713:9
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:
PF0006920=Pkinase=FE(13.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGATTGTGGATTTCGGCAGC
R:
TGGTAGAGTGTGTATCCGCAGT
Band lengths:
176-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]