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    WDTC1 WD and tetratricopeptide repeats 1 [ Homo sapiens (human) ]

    Gene ID: 23038, updated on 5-Mar-2024

    Summary

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    Official Symbol
    WDTC1provided by HGNC
    Official Full Name
    WD and tetratricopeptide repeats 1provided by HGNC
    Primary source
    HGNC:HGNC:29175
    See related
    Ensembl:ENSG00000142784 MIM:619763; AllianceGenome:HGNC:29175
    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
    ADP; DCAF9
    Summary
    Predicted to enable enzyme inhibitor activity; histone binding activity; and histone deacetylase binding activity. Predicted to be involved in negative regulation of fatty acid biosynthetic process. Predicted to act upstream of or within several processes, including cellular response to insulin stimulus; glucose metabolic process; and negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of Cul4-RING E3 ubiquitin ligase complex. Predicted to be active in cytoplasm. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in testis (RPKM 28.2), heart (RPKM 14.1) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    Location:
    1p36.11
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (27234441..27308636)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (27075661..27149870)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (27561123..27635127)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene SNRPE pseudogene 7 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 503 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 504 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 505 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 506 Neighboring gene WDTC1 divergent transcript Neighboring gene ATAC-STARR-seq lymphoblastoid active region 540 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 507 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27613415-27614057 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27615731-27616716 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27625813-27626326 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 541 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27627354-27627866 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27627867-27628380 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27633747-27634272 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27634273-27634798 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27634799-27635323 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27648068-27648614 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:27648615-27649162 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:27649163-27649709 Neighboring gene actin gamma 1 pseudogene 20 Neighboring gene transmembrane protein 222 Neighboring gene RNA, U6 small nuclear 48, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 543 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 544 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27669148-27669765 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 545 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27673548-27674088 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27674089-27674627 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 508 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 509 Neighboring gene synaptotagmin like 1

    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
    • 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. The putative oncogenic role of WDTC1 in colorectal cancer. Wang X, et al. Carcinogenesis, 2022 Jun 27. PMID 35238908, Free PMC Article
    2. Adipose tissue expression of adipose (WDTC1) gene is associated with lower fat mass and enhanced insulin sensitivity in humans. Galgani JE, et al. Obesity (Silver Spring), 2013 Nov. PMID 23512946, Free PMC Article
    3. WDTC1, the ortholog of Drosophila adipose gene, associates with human obesity, modulated by MUFA intake. Lai CQ, et al. Obesity (Silver Spring), 2009 Mar. PMID 19238144, Free PMC Article
    4. Control of triglyceride storage by a WD40/TPR-domain protein. Häder T, et al. EMBO Rep, 2003 May. PMID 12717455, Free PMC Article
    5. Molecular architecture and assembly of the DDB1-CUL4A ubiquitin ligase machinery. Angers S, et al. Nature, 2006 Oct 5. PMID 16964240

    See all (42) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The putative oncogenic role of WDTC1 in colorectal cancer.
      Title: The putative oncogenic role of WDTC1 in colorectal cancer.
    2. Our results identify a biochemical role for WDTC1 and extend the functional range of the CRL4 complex to the suppression of fat accumulation.
      Title: The antiobesity factor WDTC1 suppresses adipogenesis via the CRL4WDTC1 E3 ligase.
    3. High adp expression in human adipose tissue is associated with lower adiposity and enhanced glucose utilization.
      Title: Adipose tissue expression of adipose (WDTC1) gene is associated with lower fat mass and enhanced insulin sensitivity in humans.
    4. WDTC1 variation may be an important risk factor contributing to obesity in both Puerto Rican and white populations.
      Title: WDTC1, the ortholog of Drosophila adipose gene, associates with human obesity, modulated by MUFA intake.
    5. Observational study of gene-disease association and gene-environment interaction. (HuGE Navigator)
      Title: WDTC1, the ortholog of Drosophila adipose gene, associates with human obesity, modulated by MUFA intake.
    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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    Replication interactions

    Interaction Pubs
    Knockdown of WD and tetratricopeptide repeats 1 (WDTC1) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells 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

    Homology

    Clone Names

    • KIAA1037

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables enzyme inhibitor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone deacetylase binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cellular response to insulin stimulus IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in glucose metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in in utero embryonic development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in intracellular chemical homeostasis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in multicellular organism growth IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of fatty acid biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of cell size IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of Cul4-RING E3 ubiquitin ligase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    WD and tetratricopeptide repeats protein 1
    Names
    DDB1 and CUL4 associated factor 9
    adipose homolog

    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_001276252.2 → NP_001263181.1  WD and tetratricopeptide repeats protein 1 isoform a

      See identical proteins and their annotated locations for NP_001263181.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
      Source sequence(s)
      AK315564, BC032523, DB072151, FO393419, HY218382
      Consensus CDS
      CCDS60044.1
      UniProtKB/Swiss-Prot
      D3DPL5, Q5SSC5, Q8N5D0, Q9NV87, Q9UPW4
      Related
      ENSP00000317971.3, ENST00000319394.8
      Conserved Domains (4) summary
      PLN03088
      Location:368 → 438
      PLN03088; SGT1, suppressor of G2 allele of SKP1; Provisional
      sd00006
      Location:366 → 390
      TPR; TPR repeat [structural motif]
      sd00039
      Location:51 → 88
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:34 → 163
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    2. NM_001410767.1 → NP_001397696.1  WD and tetratricopeptide repeats protein 1 isoform c

      Status: VALIDATED

      Source sequence(s)
      AL590640, FO393419
      Consensus CDS
      CCDS90895.1
      Related
      ENSP00000434578.1, ENST00000447062.2

    3. NM_015023.5 → NP_055838.2  WD and tetratricopeptide repeats protein 1 isoform b

      See identical proteins and their annotated locations for NP_055838.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the central coding region, compared to variant 1, resulting in an isoform (b) that is 1 aa shorter than isoform a.
      Source sequence(s)
      BC032523, DB072151, FO393419, HY218382
      Consensus CDS
      CCDS296.1
      UniProtKB/Swiss-Prot
      Q8N5D0
      Related
      ENSP00000355317.3, ENST00000361771.7
      Conserved Domains (4) summary
      PLN03088
      Location:367 → 437
      PLN03088; SGT1, suppressor of G2 allele of SKP1; Provisional
      sd00006
      Location:365 → 389
      TPR; TPR repeat [structural motif]
      sd00039
      Location:51 → 88
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:34 → 163
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    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
      27234441..27308636
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047449749.1 → XP_047305705.1  WD and tetratricopeptide repeats protein 1 isoform X1

      UniProtKB/Swiss-Prot
      D3DPL5, Q5SSC5, Q8N5D0, Q9NV87, Q9UPW4

    2. XM_047449760.1 → XP_047305716.1  WD and tetratricopeptide repeats protein 1 isoform X2

    3. XM_047449761.1 → XP_047305717.1  WD and tetratricopeptide repeats protein 1 isoform X3

    4. XM_011541058.4 → XP_011539360.1  WD and tetratricopeptide repeats protein 1 isoform X5

      Conserved Domains (7) summary
      COG2319
      Location:41 → 329
      WD40; WD40 repeat [General function prediction only]
      sd00006
      Location:366 → 390
      TPR; TPR repeat [structural motif]
      pfam00515
      Location:396 → 430
      TPR_1; Tetratricopeptide repeat
      pfam13414
      Location:366 → 430
      TPR_11; TPR repeat
      pfam13432
      Location:402 → 467
      TPR_16; Tetratricopeptide repeat
      sd00039
      Location:51 → 88
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:34 → 163
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    5. XM_011541057.2 → XP_011539359.1  WD and tetratricopeptide repeats protein 1 isoform X1

      See identical proteins and their annotated locations for XP_011539359.1

      UniProtKB/Swiss-Prot
      D3DPL5, Q5SSC5, Q8N5D0, Q9NV87, Q9UPW4
      Conserved Domains (4) summary
      PLN03088
      Location:368 → 438
      PLN03088; SGT1, suppressor of G2 allele of SKP1; Provisional
      sd00006
      Location:366 → 390
      TPR; TPR repeat [structural motif]
      sd00039
      Location:51 → 88
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:34 → 163
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    6. XM_047449750.1 → XP_047305706.1  WD and tetratricopeptide repeats protein 1 isoform X1

      UniProtKB/Swiss-Prot
      D3DPL5, Q5SSC5, Q8N5D0, Q9NV87, Q9UPW4

    7. XM_047449768.1 → XP_047305724.1  WD and tetratricopeptide repeats protein 1 isoform X4

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      27075661..27149870
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054335262.1 → XP_054191237.1  WD and tetratricopeptide repeats protein 1 isoform X1

      UniProtKB/Swiss-Prot
      D3DPL5, Q5SSC5, Q8N5D0, Q9NV87, Q9UPW4

    2. XM_054335265.1 → XP_054191240.1  WD and tetratricopeptide repeats protein 1 isoform X2

    3. XM_054335266.1 → XP_054191241.1  WD and tetratricopeptide repeats protein 1 isoform X3

    4. XM_054335268.1 → XP_054191243.1  WD and tetratricopeptide repeats protein 1 isoform X5

    5. XM_054335264.1 → XP_054191239.1  WD and tetratricopeptide repeats protein 1 isoform X1

      UniProtKB/Swiss-Prot
      D3DPL5, Q5SSC5, Q8N5D0, Q9NV87, Q9UPW4

    6. XM_054335263.1 → XP_054191238.1  WD and tetratricopeptide repeats protein 1 isoform X1

      UniProtKB/Swiss-Prot
      D3DPL5, Q5SSC5, Q8N5D0, Q9NV87, Q9UPW4

    7. XM_054335267.1 → XP_054191242.1  WD and tetratricopeptide repeats protein 1 isoform X4

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8N5D0.2 GenPept UniProtKB/Swiss-Prot:Q8N5D0

    Gene LinkOut

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