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    STK40 serine/threonine kinase 40 [ Homo sapiens (human) ]

    Gene ID: 83931, updated on 2-Nov-2024

    Summary

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    Official Symbol
    STK40provided by HGNC
    Official Full Name
    serine/threonine kinase 40provided by HGNC
    Primary source
    HGNC:HGNC:21373
    See related
    Ensembl:ENSG00000196182 MIM:609437; AllianceGenome:HGNC:21373
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    SHIK; SgK495
    Summary
    Predicted to enable ATP binding activity; histone H2AS1 kinase activity; and protein serine kinase activity. Predicted to be involved in chromatin remodeling and protein phosphorylation. Predicted to act upstream of or within several processes, including glycogen metabolic process; lung development; and respiratory system process. Located in cytosol and nucleoplasm. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in testis (RPKM 28.4), ovary (RPKM 17.2) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See STK40 in Genome Data Viewer
    Location:
    1p34.3
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (36339628..36385924, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (36202501..36248808, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (36805229..36851525, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene thyroid hormone receptor associated protein 3 Neighboring gene Sharpr-MPRA regulatory regions 10257 and 14041 Neighboring gene ubiquitin conjugating enzyme E2 V2 pseudogene 4 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 659 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:36726300-36726456 Neighboring gene Sharpr-MPRA regulatory region 2392 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 660 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36772217-36773017 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36786744-36787628 Neighboring gene SH3 domain containing 21 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36788515-36789399 Neighboring gene eva-1 homolog B Neighboring gene ATAC-STARR-seq lymphoblastoid active region 751 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:36823274-36823774 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36834695-36835363 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36835364-36836031 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36837681-36838244 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36838245-36838808 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:36839045-36840244 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:36844393-36844892 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 666 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 667 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 668 Neighboring gene uncharacterized LOC124904012 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:36851839-36853038 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36862654-36863366 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36863367-36864078 Neighboring gene LSM10, U7 small nuclear RNA associated

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Construction and validation of a novel senescence-related risk score can help predict the prognosis and tumor microenvironment of gastric cancer patients and determine that STK40 can affect the ROS accumulation and proliferation ability of gastric cancer cells. Sun W, et al. Front Immunol, 2023. PMID 37915566, Free PMC Article
    2. Identification of biomarkers of human skin ageing in both genders. Wnt signalling - a label of skin ageing? Makrantonaki E, et al. PLoS One, 2012. PMID 23226273, Free PMC Article
    3. MicroRNA-31 is overexpressed in psoriasis and modulates inflammatory cytokine and chemokine production in keratinocytes via targeting serine/threonine kinase 40. Xu N, et al. J Immunol, 2013 Jan 15. PMID 23233723
    4. Identification of a novel serine/threonine kinase that inhibits TNF-induced NF-kappaB activation and p53-induced transcription. Huang J, et al. Biochem Biophys Res Commun, 2003 Oct 3. PMID 13679039
    5. STK40 inhibits trophoblast fusion by mediating COP1 ubiquitination to degrade P57(Kip2). Li X, et al. J Transl Med, 2024 Sep 20. PMID 39304928, Free PMC Article

    See all (35) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. STK40 inhibits trophoblast fusion by mediating COP1 ubiquitination to degrade P57[Kip2].
      Title: STK40 inhibits trophoblast fusion by mediating COP1 ubiquitination to degrade P57(Kip2).
    2. Construction and validation of a novel senescence-related risk score can help predict the prognosis and tumor microenvironment of gastric cancer patients and determine that STK40 can affect the ROS accumulation and proliferation ability of gastric cancer cells.
      Title: Construction and validation of a novel senescence-related risk score can help predict the prognosis and tumor microenvironment of gastric cancer patients and determine that STK40 can affect the ROS accumulation and proliferation ability of gastric cancer cells.
    3. STK40 and LATS2 are conserved miR-31 target genes that have roles in regulation of keratinocyte growth and hair follicle biology
      Title: The major miR-31 target genes STK40 and LATS2 and their implications in the regulation of keratinocyte growth and hair differentiation.
    4. STK40 binds the COP1 WD40 domain using a VPD/E motif in its C-terminal tail.
      Title: STK40 Is a Pseudokinase that Binds the E3 Ubiquitin Ligase COP1.
    5. identification as a negative regulator of NF-kappaB- and p53-mediated gene transcription [SINK-homologous serine-threonine kinase]
      Title: Identification of a novel serine/threonine kinase that inhibits TNF-induced NF-kappaB activation and p53-induced transcription.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Pr55(Gag) gag The amplified luminescent proximity homogeneous assay (AlphaScreen) identifies the interaction of HIV-1 Gag with SgK495 PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Potential readthrough

    Included gene: LSM10

    Homology

    Clone Names

    • MGC4796, 2310004N11Rik, RP11-268J15.4

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H2AS1 kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein serine kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in glycogen metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in lung alveolus development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in lung morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in multicellular organism growth IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein phosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of MAPK cascade IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of MAPK cascade IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in respiratory system process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  

    General protein information

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    Preferred Names
    serine/threonine-protein kinase 40
    Names
    SINK-homologous serine/threonine kinase
    SINK-homologous serine/threonine-protein kinase
    Ser/Thr-like kinase
    sugen kinase 495
    NP_001269475.1
    NP_001269476.1
    NP_114406.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001282546.2 → NP_001269475.1  serine/threonine-protein kinase 40 isoform 1

      See identical proteins and their annotated locations for NP_001269475.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AL834137, BC008344, DA375448
      Consensus CDS
      CCDS60089.1
      UniProtKB/Swiss-Prot
      Q8N2I9
      Related
      ENSP00000362222.3, ENST00000373130.7
      Conserved Domains (1) summary
      cd13974
      Location:43 → 335
      STKc_SHIK; Catalytic domain of the Serine/Threonine kinase, SINK-homologous inhibitory kinase

    2. NM_001282547.2 → NP_001269476.1  serine/threonine-protein kinase 40 isoform 2

      See identical proteins and their annotated locations for NP_001269476.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1. Both variants 2 and 3 encode the same isoform.
      Source sequence(s)
      BC007835, DA375448
      Consensus CDS
      CCDS407.1
      UniProtKB/Swiss-Prot
      D3DPS8, Q5VTK8, Q5VTK9, Q6ZMN1, Q8N2I9, Q8N2J8, Q8N3I6, Q96HN6, Q96I44, Q9BSA3, Q9H7H6
      Related
      ENSP00000362224.4, ENST00000373132.4
      Conserved Domains (1) summary
      cd13974
      Location:38 → 330
      STKc_SHIK; Catalytic domain of the Serine/Threonine kinase, SINK-homologous inhibitory kinase

    3. NM_032017.3 → NP_114406.1  serine/threonine-protein kinase 40 isoform 2

      See identical proteins and their annotated locations for NP_114406.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1. Both variants 2 and 3 encode the same isoform.
      Source sequence(s)
      AL834137, DA375448
      Consensus CDS
      CCDS407.1
      UniProtKB/Swiss-Prot
      D3DPS8, Q5VTK8, Q5VTK9, Q6ZMN1, Q8N2I9, Q8N2J8, Q8N3I6, Q96HN6, Q96I44, Q9BSA3, Q9H7H6
      Related
      ENSP00000362221.3, ENST00000373129.7
      Conserved Domains (1) summary
      cd13974
      Location:38 → 330
      STKc_SHIK; Catalytic domain of the Serine/Threonine kinase, SINK-homologous inhibitory kinase

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      36339628..36385924 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      36202501..36248808 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8N2I9.2 GenPept UniProtKB/Swiss-Prot:Q8N2I9

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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