DreINT0047642 @ danRer10
Intron Retention
Gene
ENSDARG00000005908 | clk4b
Description
CDC-like kinase 4b [Source:ZFIN;Acc:ZDB-GENE-050227-19]
Coordinates
chr21:32250920-32251269:-
Coord C1 exon
chr21:32251103-32251269
Coord A exon
chr21:32251015-32251102
Coord C2 exon
chr21:32250920-32251014
Length
88 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
ATCTCTTTATTTGCTATTAGTTC
3' ss Score
5.14
Exon sequences
Seq C1 exon
TGCTTGTGTCCGGATGCTTGACTGGTTCGATCACCACGGCCACATCTGCATAGTGTTTGAGCTGCTGGGTCTGAGCACATATGACTTCCTGAAGGAGAATGGATTCATGCCTTTCTCGCTGACCCAGATTAGACACATGGCGGACCAGATCTTTAGGGCTGTGCGCT
Seq A exon
GTGAGTATATGTAGTAAAACTGTTAATGAAAAAACCATTGATTCATTTAATGTTCATAATAGTCATCCATCTCTTTATTTGCTATTAG
Seq C2 exon
TTCTGCATAAAAATAAGTTGACGCACACTGACCTGAAGCCTGAAAACATTCTCTTTGTGGACTCCAACTATGACATTAAATATAACTCAAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005908:ENSDART00000139890:7
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(17.7=100)
A:
NA
C2:
PF0006920=Pkinase=FE(9.8=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:
CGGCCACATCTGCATAGTGTT
R:
TTCAGGTCAGTGTGCGTCAAC
Band lengths:
168-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]