RnoINT0037367 @ rn6
Intron Retention
Gene
ENSRNOG00000025768 | Clk1
Description
CDC-like kinase 1 [Source:RGD Symbol;Acc:1311469]
Coordinates
chr9:65297484-65297783:-
Coord C1 exon
chr9:65297704-65297783
Coord A exon
chr9:65297575-65297703
Coord C2 exon
chr9:65297484-65297574
Length
129 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TGAACATTTAACTGTTCTAGGAA
3' ss Score
8.59
Exon sequences
Seq C1 exon
ACTCATGATAGCAGGGAACATTTAGCAATGATGGAAAGGATTCTTGGACCACTGCCAAAGCACATGATTGAGAAAACCAG
Seq A exon
GTATGTTTTACTTGTCATGTCGTCTGTAGTAGTGAATACCACTGGATTCGATTAGTAACTCATGCACAGATACTTTGCTGTGTCGAGCTGGGGAGGGCAGGATGGTAATTGAACATTTAACTGTTCTAG
Seq C2 exon
GAAACGCACATACTTCCATCACGATCGATTGGATTGGGATGAGCACAGTTCTGCTGGCAGATATGTTTCTCGGCGCTGTAAGCCTCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025768:ENSRNOT00000030934:11
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(8.2=100)
A:
NA
C2:
PF0006920=Pkinase=FE(9.5=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:
ACTCATGATAGCAGGGAACATT
R:
CTTCAGAGGCTTACAGCGC
Band lengths:
171-300
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]