RnoINT0037384 @ rn6
Intron Retention
Gene
ENSRNOG00000020500 | Clk2
Description
CDC-like kinase 2 [Source:RGD Symbol;Acc:1359711]
Coordinates
chr2:188482305-188482760:+
Coord C1 exon
chr2:188482305-188482371
Coord A exon
chr2:188482372-188482643
Coord C2 exon
chr2:188482644-188482760
Length
272 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
GAAAACCTGTTGCCCTACAGGGG
3' ss Score
7.28
Exon sequences
Seq C1 exon
ATGAAATTGTAAGCACCTTAGGAGAAGGGACCTTTGGCCGAGTTGTACAGTGTGTGGACCATCGCAG
Seq A exon
GTAACTATGGCCCGCCGCTTACTCCTCCTCTGTTAAGCTTAGAAGATTGTGAGGAATCGGATCTGTTTACAGATTAAACAGGCAGAAGTTCTCAGTCTGATGCTTTAGTCACTGATGCATTCAACCTGAGATTTTTTTTTTTTTTTTTTTTTTCCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCTCTGAGATGTTCTTGAACCCAATGAAAACCTGTTGCCCTACAG
Seq C2 exon
GGGCGGAGCACGAGTTGCCCTGAAGATCATTAAGAATGTGGAGAAGTACAAGGAGGCCGCTCGACTAGAAATCAACGTGCTGGAGAAAATCAATGAGAAAGATCCTGACAACAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020500:ENSRNOT00000027793:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(6.9=95.7)
A:
NA
C2:
PF0006920=Pkinase=FE(12.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAATTGTAAGCACCTTAGGAGA
R:
TCTTGTTGTCAGGATCTTTCTCA
Band lengths:
182-454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]