RnoINT0037395 @ rn6
Intron Retention
Gene
ENSRNOG00000030126 | Clk3
Description
CDC-like kinase 3 [Source:RGD Symbol;Acc:621259]
Coordinates
chr8:62535266-62535705:-
Coord C1 exon
chr8:62535609-62535705
Coord A exon
chr8:62535333-62535608
Coord C2 exon
chr8:62535266-62535332
Length
276 bp
Sequences
Splice sites
5' ss Seq
GATGTACAG
5' ss Score
-3.25
3' ss Seq
CAGCTTCTTCTTTCTCACAGATG
3' ss Score
9.56
Exon sequences
Seq C1 exon
AGAAGCCAACAGAGCAGTAAGCGCAGCAGCCGGAGTGTGGAAGATGACAAGGAGGGCCACCTGGTGTGCCGGATCGGCGATTGGCTCCAAGAGCGAT
Seq A exon
GTACAGCCACCTTTCGTAAAACTTTACCTCTCTACTTTCTACCCCCCTTGTTAGACGAGACCTCTCCTGCGTGGAGGGGCCTCTAGTGCGCGTGGCGCCTTAGTGGGGCCACCAGTAATTGCCTGAATGACACAGACACTAGCAACTTCTGTTTTAAAGAGTGTAGCAGTGAGCAAGAACCTTTGTTGTTTTTGAGGATTTGAATGCTGTGAACTTGCAGGAGCTGCCAGCCTCCCACCCTCTAGACTCTCATGCTCAGCTTCTTCTTTCTCACAG
Seq C2 exon
ATGAGATCGTGGGGAACCTGGGTGAAGGCACCTTTGGCAAGGTGGTGGAGTGCTTGGACCATGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030126:ENSRNOT00000068108:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.424 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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAGCCAACAGAGCAGTAAGC
R:
CTGGCATGGTCCAAGCACTC
Band lengths:
164-440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]