Human Gene RIOK2 (ENST00000283109.8_9) from GENCODE V47lift37

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Description: RIO kinase 2, transcript variant 1 (from RefSeq NM_018343.3)
Gencode Transcript: ENST00000283109.8_9
Gencode Gene: ENSG00000058729.11_15
Transcript (Including UTRs)
Position: hg19 chr5:96,496,571-96,518,951 Size: 22,381 Total Exon Count: 10 Strand: -
Coding Region
Position: hg19 chr5:96,498,765-96,518,895 Size: 20,131 Coding Exon Count: 10

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	Gene Alleles
RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species	GO Annotations
mRNA Descriptions	Pathways	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr5:96,496,571-96,518,951)			mRNA (may differ from genome)		Protein (552 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	MGI	OMIM	PubMed	Reactome	UniProtKB
BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: RIOK2_HUMAN DESCRIPTION: RecName: Full=Serine/threonine-protein kinase RIO2; EC=2.7.11.1; AltName: Full=RIO kinase 2; CATALYTIC ACTIVITY: ATP + a protein = ADP + a phosphoprotein. SIMILARITY: Belongs to the protein kinase superfamily. RIO-type Ser/Thr kinase family. SIMILARITY: Contains 1 protein kinase domain.

Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl C016403 2,4-dinitrotoluene C028451 3,4,3',4'-tetrachlorobiphenyl D000082 Acetaminophen D001564 Benzo(a)pyrene D019327 Copper Sulfate D016572 Cyclosporine D003993 Dibutyl Phthalate D004041 Dietary Fats C568376 MT19c compound more ... click here to view the complete list

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 6.86 RPKM in Cells - Cultured fibroblasts Total median expression: 176.08 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-17.70	56	-0.316	Picture	PostScript	Text
3' UTR	-489.10	2194	-0.223	Picture	PostScript	Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

Protein Domain and Structure Information

InterPro Domains: Graphical view of domain structure
IPR011009 - Kinase-like_dom
IPR018934 - RIO-like_kinase
IPR015285 - RIO2_kinase_winged_hlx_N
IPR018935 - RIO_kinase_CS
IPR011991 - WHTH_trsnscrt_rep_DNA-bd

Pfam Domains:
PF01163 - RIO1 family
PF03109 - ABC1 atypical kinase-like domain
PF06293 - Lipopolysaccharide kinase (Kdo/WaaP) family
PF09202 - Rio2, N-terminal

SCOP Domains:
46785 - "Winged helix" DNA-binding domain
56112 - Protein kinase-like (PK-like)

ModBase Predicted Comparative 3D Structure on Q9BVS4


Front	Top	Side

The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

Orthologous Genes in Other Species

Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	Genome Browser
Gene Details	Gene Details		Gene Details		Gene Details
Gene Sorter	Gene Sorter		Gene Sorter		Gene Sorter
	RGD	Ensembl			SGD
					Protein Sequence
					Alignment

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0000166 nucleotide binding GO:0004672 protein kinase activity GO:0004674 protein serine/threonine kinase activity GO:0005515 protein binding GO:0005524 ATP binding GO:0016301 kinase activity GO:0016740 transferase activity GO:0046872 metal ion binding Biological Process: GO:0006468 protein phosphorylation GO:0007049 cell cycle GO:0016310 phosphorylation GO:0030071 regulation of mitotic metaphase/anaphase transition GO:0030490 maturation of SSU-rRNA GO:0042254 ribosome biogenesis GO:0042274 ribosomal small subunit biogenesis GO:0046777 protein autophosphorylation GO:2000208 positive regulation of ribosomal small subunit export from nucleus GO:2000234 positive regulation of rRNA processing Cellular Component: GO:0005654 nucleoplasm GO:0005737 cytoplasm GO:0005829 cytosol GO:0030688 preribosome, small subunit precursor

Descriptions from all associated GenBank mRNAs


	LF210706 - JP 2014500723-A/18209: Polycomb-Associated Non-Coding RNAs. AK001697 - Homo sapiens cDNA FLJ10835 fis, clone NT2RP4001210. LF210707 - JP 2014500723-A/18210: Polycomb-Associated Non-Coding RNAs. LF340503 - JP 2014500723-A/148006: Polycomb-Associated Non-Coding RNAs. LF340502 - JP 2014500723-A/148005: Polycomb-Associated Non-Coding RNAs. LF340501 - JP 2014500723-A/148004: Polycomb-Associated Non-Coding RNAs. BC000953 - Homo sapiens RIO kinase 2 (yeast), mRNA (cDNA clone MGC:4923 IMAGE:3449997), complete cds. AK002021 - Homo sapiens cDNA FLJ11159 fis, clone PLACE1006966. LF340500 - JP 2014500723-A/148003: Polycomb-Associated Non-Coding RNAs. KJ899191 - Synthetic construct Homo sapiens clone ccsbBroadEn_08585 RIOK2 gene, encodes complete protein. LF340499 - JP 2014500723-A/148002: Polycomb-Associated Non-Coding RNAs. AK225348 - Homo sapiens mRNA for Serine/threonine-protein kinase RIO2 variant, clone: HEP13058. LF385165 - JP 2014500723-A/192668: Polycomb-Associated Non-Coding RNAs. LF340498 - JP 2014500723-A/148001: Polycomb-Associated Non-Coding RNAs. LF340497 - JP 2014500723-A/148000: Polycomb-Associated Non-Coding RNAs. LF340496 - JP 2014500723-A/147999: Polycomb-Associated Non-Coding RNAs. LF340495 - JP 2014500723-A/147998: Polycomb-Associated Non-Coding RNAs. LF340494 - JP 2014500723-A/147997: Polycomb-Associated Non-Coding RNAs. LF340493 - JP 2014500723-A/147996: Polycomb-Associated Non-Coding RNAs. LF340492 - JP 2014500723-A/147995: Polycomb-Associated Non-Coding RNAs. LF340490 - JP 2014500723-A/147993: Polycomb-Associated Non-Coding RNAs. LF340488 - JP 2014500723-A/147991: Polycomb-Associated Non-Coding RNAs. LF340487 - JP 2014500723-A/147990: Polycomb-Associated Non-Coding RNAs. MA620742 - JP 2018138019-A/192668: Polycomb-Associated Non-Coding RNAs. MA446283 - JP 2018138019-A/18209: Polycomb-Associated Non-Coding RNAs. MA446284 - JP 2018138019-A/18210: Polycomb-Associated Non-Coding RNAs. MA576080 - JP 2018138019-A/148006: Polycomb-Associated Non-Coding RNAs. MA576079 - JP 2018138019-A/148005: Polycomb-Associated Non-Coding RNAs. MA576078 - JP 2018138019-A/148004: Polycomb-Associated Non-Coding RNAs. MA576077 - JP 2018138019-A/148003: Polycomb-Associated Non-Coding RNAs. MA576076 - JP 2018138019-A/148002: Polycomb-Associated Non-Coding RNAs. MA576075 - JP 2018138019-A/148001: Polycomb-Associated Non-Coding RNAs. MA576074 - JP 2018138019-A/148000: Polycomb-Associated Non-Coding RNAs. MA576073 - JP 2018138019-A/147999: Polycomb-Associated Non-Coding RNAs. MA576072 - JP 2018138019-A/147998: Polycomb-Associated Non-Coding RNAs. MA576071 - JP 2018138019-A/147997: Polycomb-Associated Non-Coding RNAs. MA576070 - JP 2018138019-A/147996: Polycomb-Associated Non-Coding RNAs. MA576069 - JP 2018138019-A/147995: Polycomb-Associated Non-Coding RNAs. MA576067 - JP 2018138019-A/147993: Polycomb-Associated Non-Coding RNAs. MA576065 - JP 2018138019-A/147991: Polycomb-Associated Non-Coding RNAs. MA576064 - JP 2018138019-A/147990: Polycomb-Associated Non-Coding RNAs.

Biochemical and Signaling Pathways


	Reactome (by CSHL, EBI, and GO) Protein Q9BVS4 (Reactome details) participates in the following event(s): R-HSA-6791226 Major pathway of rRNA processing in the nucleolus and cytosol R-HSA-8868773 rRNA processing in the nucleus and cytosol R-HSA-72312 rRNA processing R-HSA-8953854 Metabolism of RNA

Other Names for This Gene


	Alternate Gene Symbols: D6RDI3, ENST00000283109.1, ENST00000283109.2, ENST00000283109.3, ENST00000283109.4, ENST00000283109.5, ENST00000283109.6, ENST00000283109.7, NM_018343, Q9BVS4, Q9NUT0, RIO2 , RIOK2 , RIOK2_HUMAN, uc317kbl.1, uc317kbl.2 UCSC ID: ENST00000283109.8_9 RefSeq Accession: NM_018343.3 Protein: Q9BVS4 (aka RIOK2_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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