RnoINT0037373 @ rn6
Intron Retention
Gene
ENSRNOG00000025768 | Clk1
Description
CDC-like kinase 1 [Source:RGD Symbol;Acc:1311469]
Coordinates
chr9:65301745-65302114:-
Coord C1 exon
chr9:65301998-65302114
Coord A exon
chr9:65301912-65301997
Coord C2 exon
chr9:65301745-65301911
Length
86 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGT
5' ss Score
7.4
3' ss Seq
TTTTTTTTATGTGTTTATAGCCG
3' ss Score
8.04
Exon sequences
Seq C1 exon
GGGAGGTAGACATGTAGCGGTAAAAATAGTTAAAAATGTGGATAGATACTGTGAAGCTGCTCAATCGGAAATACAAGTTTTGGAACACTTAAATGCAACAGACCCCCATAGTACTTT
Seq A exon
GTAAGTATCAGATGAAAACTTTAAATAGTTTCAGAAAGATTTGAATTGTAAGCTCTATTGAATTATTTTTTTTTATGTGTTTATAG
Seq C2 exon
CCGTTGTGTCCAGATGTTGGAATGGTTTGAGCACCGAGGTCACATTTGCATTGTGTTTGAACTTCTGGGGCTTAGTACTTACGATTTCATTAAGGAAAACAGCTTTCTGCCGTTTCGAATGGATCATATCAGGAAGATGGCATATCAAATATGCAAATCTGTAAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025768:ENSRNOT00000030934:6
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:
PF105774=UPF0560=PD(0.1=0.0),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:
GGGAGGTAGACATGTAGCGGT
R:
ATGCAAATGTGACCTCGGTGC
Band lengths:
168-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]