RnoINT0037379 @ rn6
Intron Retention
Gene
ENSRNOG00000020500 | Clk2
Description
CDC-like kinase 2 [Source:RGD Symbol;Acc:1359711]
Coordinates
chr2:188487315-188487664:+
Coord C1 exon
chr2:188487315-188487394
Coord A exon
chr2:188487395-188487573
Coord C2 exon
chr2:188487574-188487664
Length
179 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACG
5' ss Score
7
3' ss Seq
AACCTCCCCTTCCCCTTTAGAAA
3' ss Score
9.35
Exon sequences
Seq C1 exon
ACCCATGACAACAGAGAGCATCTAGCCATGATGGAAAGGATCCTGGGTCCTGTCCCCTCTCGGATGATCAGAAAGACAAG
Seq A exon
GTGACGCTTGAGCAGGAGGCACTTGAGCTCTTCTTCCCTCGGAATTTGTCTGTCACACGCCACTTTCTTTTTTCCATTGATACCTCCCTAGCTCCTACTTACTTTCACTTGGGTAAACAAGGGAACAGATATTATCAAAGTGGAACCTTCTGATGCACCAACCTCCCCTTCCCCTTTAG
Seq C2 exon
AAAACAGAAATATTTTTATCGGGGTCGCCTGGATTGGGATGAGAACACCTCAGCTGGGCGCTACGTCCGTGAGAACTGCAAACCACTACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020500:ENSRNOT00000027793:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.032
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(8.2=100)
A:
NA
C2:
PF0006920=Pkinase=FE(10.3=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:
ACCCATGACAACAGAGAGCAT
R:
CCGTAGTGGTTTGCAGTTCTCA
Band lengths:
171-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]