DreINT0047641 @ danRer10
Intron Retention
Gene
ENSDARG00000005908 | clk4b
Description
CDC-like kinase 4b [Source:ZFIN;Acc:ZDB-GENE-050227-19]
Coordinates
chr21:32251103-32251471:-
Coord C1 exon
chr21:32251355-32251471
Coord A exon
chr21:32251270-32251354
Coord C2 exon
chr21:32251103-32251269
Length
85 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
TTGCCTCTGTTTCTGTGCAGTGC
3' ss Score
9.71
Exon sequences
Seq C1 exon
AGGTAATGTAAGAGTGGCACTGAAAATCATCAAAAATATTGAGCGCTACCGTGAGGCAGCATTGTCAGAAGTTGATGTGCTTGAGCGGATAAACTCTCTCGATGATGAAAAGAGATT
Seq A exon
GTGAGTATTAAACTTTGGTGTAGAAATACTTATAAGATGCATAAAATATACAAATAAAGAAACACTTGCCTCTGTTTCTGTGCAG
Seq C2 exon
TGCTTGTGTCCGGATGCTTGACTGGTTCGATCACCACGGCCACATCTGCATAGTGTTTGAGCTGCTGGGTCTGAGCACATATGACTTCCTGAAGGAGAATGGATTCATGCCTTTCTCGCTGACCCAGATTAGACACATGGCGGACCAGATCTTTAGGGCTGTGCGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005908:ENSDART00000139890:6
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(12.3=100)
A:
NA
C2:
PF0006920=Pkinase=FE(17.7=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:
AAGTTGATGTGCTTGAGCGGA
R:
GGTCAGCGAGAAAGGCATGAA
Band lengths:
173-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]