Human Gene RIOK3 (ENST00000339486.8_6) from GENCODE V47lift37

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Description: RIO kinase 3, transcript variant 3 (from RefSeq NR_145477.2)
Gencode Transcript: ENST00000339486.8_6
Gencode Gene: ENSG00000101782.15_10
Transcript (Including UTRs)
Position: hg19 chr18:21,033,251-21,063,104 Size: 29,854 Total Exon Count: 13 Strand: +
Coding Region
Position: hg19 chr18:21,033,404-21,061,243 Size: 27,840 Coding Exon Count: 13

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 (chr18:21,033,251-21,063,104)			mRNA (may differ from genome)		Protein (519 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: RIOK3_HUMAN DESCRIPTION: RecName: Full=Serine/threonine-protein kinase RIO3; EC=2.7.11.1; AltName: Full=RIO kinase 3; AltName: Full=sudD homolog; CATALYTIC ACTIVITY: ATP + a protein = ADP + a phosphoprotein. INTERACTION: Q92851:CASP10; NbExp=4; IntAct=EBI-1047061, EBI-495095; TISSUE SPECIFICITY: Widely expressed. 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 D000082 Acetaminophen D003993 Dibutyl Phthalate D013749 Tetrachlorodibenzodioxin C006780 bisphenol A C016403 2,4-dinitrotoluene C023514 2,6-dinitrotoluene C035207 4-amino-2,6-dinitrotoluene C027576 4-hydroxy-2-nonenal D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide D016604 Aflatoxin B1 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: 41.43 RPKM in Esophagus - Mucosa Total median expression: 807.99 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	-33.80	153	-0.221	Picture	PostScript	Text
3' UTR	-483.70	1861	-0.260	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
IPR000687 - RIO_kinase
IPR018935 - RIO_kinase_CS
IPR017406 - Ser/Thr_kinase_Rio3

Pfam Domains:
PF01163 - RIO1 family

SCOP Domains:
56112 - Protein kinase-like (PK-like)

ModBase Predicted Comparative 3D Structure on O14730


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	No ortholog
Gene Details	Gene Details		Gene Details
Gene Sorter	Gene Sorter		Gene Sorter
	RGD	Ensembl

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0000166 nucleotide binding 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 GO:0089720 caspase binding Biological Process: GO:0002376 immune system process GO:0006468 protein phosphorylation GO:0007059 chromosome segregation GO:0016310 phosphorylation GO:0030490 maturation of SSU-rRNA GO:0032463 negative regulation of protein homooligomerization GO:0032728 positive regulation of interferon-beta production GO:0039534 negative regulation of MDA-5 signaling pathway GO:0042254 ribosome biogenesis GO:0043124 negative regulation of I-kappaB kinase/NF-kappaB signaling GO:0045087 innate immune response GO:0045089 positive regulation of innate immune response GO:0051607 defense response to virus GO:0071359 cellular response to dsRNA GO:0098586 cellular response to virus GO:1990786 cellular response to dsDNA Cellular Component: GO:0005737 cytoplasm GO:0005829 cytosol GO:0030688 preribosome, small subunit precursor

Descriptions from all associated GenBank mRNAs


	AK057292 - Homo sapiens cDNA FLJ32730 fis, clone TESTI2001099, highly similar to Serine/threonine-protein kinase RIO3 (EC 2.7.11.1). AK303938 - Homo sapiens cDNA FLJ54233 complete cds, highly similar to Serine/threonine-protein kinase RIO3 (EC 2.7.11.1). BC028360 - Homo sapiens RIO kinase 3 (yeast), mRNA (cDNA clone MGC:26362 IMAGE:4828351), complete cds. LP895363 - Sequence 227 from Patent EP3253886. JD396580 - Sequence 377604 from Patent EP1572962. BC039729 - Homo sapiens RIO kinase 3 (yeast), mRNA (cDNA clone MGC:47736 IMAGE:5745005), complete cds. JD523179 - Sequence 504203 from Patent EP1572962. AF013591 - Homo sapiens homolog of the Aspergillus nidulans sudD gene product mRNA, complete cds. JD195020 - Sequence 176044 from Patent EP1572962. HM005587 - Homo sapiens clone HTL-S-47 testicular secretory protein Li 47 mRNA, complete cds. AK024958 - Homo sapiens cDNA: FLJ21305 fis, clone COL02124. AK304571 - Homo sapiens cDNA FLJ50375 complete cds, highly similar to Serine/threonine-protein kinase RIO3 (EC 2.7.11.1). AK310783 - Homo sapiens cDNA, FLJ17825. JD515716 - Sequence 496740 from Patent EP1572962. BX640929 - Homo sapiens mRNA; cDNA DKFZp779L1370 (from clone DKFZp779L1370). JD354811 - Sequence 335835 from Patent EP1572962. JD235476 - Sequence 216500 from Patent EP1572962. JD308799 - Sequence 289823 from Patent EP1572962. JD364453 - Sequence 345477 from Patent EP1572962. JD410883 - Sequence 391907 from Patent EP1572962. JD468001 - Sequence 449025 from Patent EP1572962. JD109369 - Sequence 90393 from Patent EP1572962. JD421353 - Sequence 402377 from Patent EP1572962. JD181156 - Sequence 162180 from Patent EP1572962. JD165096 - Sequence 146120 from Patent EP1572962. JD253368 - Sequence 234392 from Patent EP1572962. JD463414 - Sequence 444438 from Patent EP1572962. JD219174 - Sequence 200198 from Patent EP1572962. JD277223 - Sequence 258247 from Patent EP1572962. JD305558 - Sequence 286582 from Patent EP1572962. JD349753 - Sequence 330777 from Patent EP1572962. JD452242 - Sequence 433266 from Patent EP1572962. JD100297 - Sequence 81321 from Patent EP1572962. JD542487 - Sequence 523511 from Patent EP1572962. JD542488 - Sequence 523512 from Patent EP1572962. JD542489 - Sequence 523513 from Patent EP1572962. JD283291 - Sequence 264315 from Patent EP1572962. JD279033 - Sequence 260057 from Patent EP1572962. JD326715 - Sequence 307739 from Patent EP1572962. JD290406 - Sequence 271430 from Patent EP1572962. JD527412 - Sequence 508436 from Patent EP1572962. JD531478 - Sequence 512502 from Patent EP1572962. JD332016 - Sequence 313040 from Patent EP1572962. JD447679 - Sequence 428703 from Patent EP1572962. JD085110 - Sequence 66134 from Patent EP1572962. JD249565 - Sequence 230589 from Patent EP1572962. JD378011 - Sequence 359035 from Patent EP1572962. JD354051 - Sequence 335075 from Patent EP1572962. JD269661 - Sequence 250685 from Patent EP1572962. JD189799 - Sequence 170823 from Patent EP1572962. JD130865 - Sequence 111889 from Patent EP1572962. JD219991 - Sequence 201015 from Patent EP1572962. JD091258 - Sequence 72282 from Patent EP1572962. JD356843 - Sequence 337867 from Patent EP1572962. DQ594791 - Homo sapiens piRNA piR-60903, complete sequence.

Biochemical and Signaling Pathways


	Reactome (by CSHL, EBI, and GO) Protein O14730 (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: ENST00000339486.1, ENST00000339486.2, ENST00000339486.3, ENST00000339486.4, ENST00000339486.5, ENST00000339486.6, ENST00000339486.7, NR_145477, O14730, Q8IXN9, RIOK3_HUMAN, SUDD, uc317vjh.1, uc317vjh.2 UCSC ID: ENST00000339486.8_6 RefSeq Accession: NM_003831.5 Protein: O14730 (aka RIOK3_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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