RnoINT0037382 @ rn6
Intron Retention
Gene
ENSRNOG00000020500 | Clk2
Description
CDC-like kinase 2 [Source:RGD Symbol;Acc:1359711]
Coordinates
chr2:188480977-188481956:+
Coord C1 exon
chr2:188480977-188481205
Coord A exon
chr2:188481206-188481868
Coord C2 exon
chr2:188481869-188481956
Length
663 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
CCCCCCCCACCCCCCGACAGCAG
3' ss Score
6.61
Exon sequences
Seq C1 exon
CAGCTATGACGATCATTCATCTGACCGGCGGCTATACGATCGACGATACTGTGGCAGCTACAGGCGCAATGACTACAGCCGGGATAGAGGAGAGGCCTACTATGACACAGACTTTCGGCATTCCTATGAATACCATCGAGAGAACAGCAGTTACCGAAGCCAGCGCAGCAGCCGCCGGAAACCCAGACGGCGGAGAAGACGTAGCAGAACATTCAGCCACTCATCTTCA
Seq A exon
GTGAGTGTCAGCCCAAGCCTTTTGCTCTCCCCATTCTTCTTCAGTCCCTCAGAAAAAAAATGCCCCCTTGCTCTCAGTCATGCTTTGAAGCATGAACATTGACGTAGGCACTAAATATGCCTGCCCTCTCTCACTCTTGAGGGGCCCCAAATCTACTTTGGAGATAGAAGGTCAAACATCCTTTATGCCCTCGGTGTTATGTTGAATATGTTGGGCTTGTCGGGAGCAGCTCCTCTGCCCCGATGCCTCTTTTTTTATGAGGATCTTGGTTTTGAAAGATCTCTGTCTCCCAAGCCCTGGACTCTGTGGCCCCTCAGCAGGCAATTTTGGGTTGGGGGTCAAGGGAATACTGCGTCTGCCTAGAAGTGTGCTTCGTAGAGCATGGGGTTGTGGGTAACACTGGCAACATCATCACTTTCCTGCTCTGCCCGTGCCTTTCCCTGTCCTGATTTGGGTTTGGGGACTTGGGATTATGCGCCGCTCTCTCTTCTCACACCGCTCCGCCTTAGCACATCTGACGTGTTCCCTTCCACTGTCCCCCATCATCGTCTGTCCCCCCTGGCTGGGCGCCTGTGACCGGTGACCCCTACACCACCCACCCCGTCTCCCTCCGGCCCCCGATCCGACACCTGGCTTGCTCCGACCCCCCCCACCCCCCGACAG
Seq C2 exon
CAGCACAGCAGCCGGAGAGCCAAGAGTGTAGAGGACGACGCTGAGGGCCACCTCATCTACCACGTCGGGGACTGGCTACAAGAGCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020500:ENSRNOT00000027793:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.578 A=NA C2=0.367
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTATGACGATCATTCATCTGACCGG
R:
CTCTTGTAGCCAGTCCCCGA
Band lengths:
310-973
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]