DreINT0047639 @ danRer10
Intron Retention
Gene
ENSDARG00000005908 | clk4b
Description
CDC-like kinase 4b [Source:ZFIN;Acc:ZDB-GENE-050227-19]
Coordinates
chr21:32251708-32252156:-
Coord C1 exon
chr21:32252066-32252156
Coord A exon
chr21:32251775-32252065
Coord C2 exon
chr21:32251708-32251774
Length
291 bp
Sequences
Splice sites
5' ss Seq
GATGTATAG
5' ss Score
-2.49
3' ss Seq
TTTTTTCATCCGGTTTATAGATG
3' ss Score
7.81
Exon sequences
Seq C1 exon
AGAAGCCATCGCAGGAAAAGAACCAAGAGTATTGAGGATGATGAGGAGGGTCACCTGGTCTATCACAATGGAGACATGCTAAGAGCAAGAT
Seq A exon
GTATAGAACACAACCCTTTCTCTATATAACTGTCTGTTCTGTGTCTATTAATGGGACAAATTCAACCTACACTTAGGGGTTATAAGGGGACTTTTGTTTTTAGTATTAACCACTTTGAAATTTAAATACCATCTGTGGAACTTTAATTTGGCACAGACTTTTTATATTCAATCAATATGATTTAACTCAACTTATCAAGTCCCCATTAGTACTGTAAAATCTCTGCTTTTATATGTATCTTGTGACCAAAACAAAGCTTCGCTTATGACCATTTTTTCATCCGGTTTATAG
Seq C2 exon
ATGAGATTGTAGGGACTCTGGGAGAAGGAGCCTTTGGAAAAGTCGTGGAGTGCCTTGACCACACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005908:ENSDART00000139890:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.516 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(0.1=0.0)
A:
NA
C2:
PF0006920=Pkinase=PU(6.9=95.7)
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:
AGAAGCCATCGCAGGAAAAGA
R:
TTTGTGTGGTCAAGGCACTCC
Band lengths:
158-449
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]