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    WDR87 WD repeat domain 87 [ Homo sapiens (human) ]

    Gene ID: 83889, updated on 10-Dec-2024

    Summary

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    Official Symbol
    WDR87provided by HGNC
    Official Full Name
    WD repeat domain 87provided by HGNC
    Primary source
    HGNC:HGNC:29934
    See related
    Ensembl:ENSG00000171804 MIM:620274; AllianceGenome:HGNC:29934
    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
    NYD-SP11
    Expression
    Restricted expression toward testis (RPKM 11.3) See more
    Orthologs
    mouse all
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    Genomic context

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    See WDR87 in Genome Data Viewer
    Location:
    19q13.13
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (37884823..37906697, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (40686877..40708749, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (38375463..38397234, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:38307709-38308210 Neighboring gene uncharacterized LOC644554 Neighboring gene Sharpr-MPRA regulatory region 13711 Neighboring gene WD repeat domain 87 pseudogene Neighboring gene WD repeat domain 87B, pseudogene Neighboring gene uncharacterized LOC105372395 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:38353930-38354430 Neighboring gene uncharacterized LOC107985301 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10559 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14557 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14558 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14559 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:38405529-38406394 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:38406395-38407260 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14560 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10560 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38423536-38424198 Neighboring gene signal induced proliferation associated 1 like 3 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10561 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:38453618-38454118 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10562 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14561 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14562 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14563 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:38472499-38473000 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38479003-38479508 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38479509-38480014 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38480015-38480522 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38480523-38481028 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38481029-38481534 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr19:38489623-38490822 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38494121-38494652 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14564 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14565 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38503265-38503837 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38515553-38516056 Neighboring gene uncharacterized LOC105372396 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38516057-38516560 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:38527685-38528186 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14566 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14567 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr19:38538329-38539077 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14568 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:38542997-38543498 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38546196-38546766 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:38561125-38561626 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:38561627-38562126 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:38565075-38565574 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38572086-38572639 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38602551-38603168 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:38609967-38610170 Neighboring gene MPRA-validated peak3469 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:38620740-38621240 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:38621241-38621741 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:38623222-38623722 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:38634171-38635020 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:38648368-38648546 Neighboring gene small nucleolar RNA, C/D box 152

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. WDR87 interacts with CFAP47 protein in the middle piece of spermatozoa flagella to participate in sperm tail assembly. Liao HQ, et al. Mol Hum Reprod, 2022 Dec 28. PMID 36571501
    2. Enoyl-CoA hydratase-1 regulates mTOR signaling and apoptosis by sensing nutrients. Zhang YK, et al. Nat Commun, 2017 Sep 6. PMID 28878358, Free PMC Article
    3. Physiological and pathophysiological characteristics of ataxin-3 isoforms. Weishäupl D, et al. J Biol Chem, 2019 Jan 11. PMID 30455355, Free PMC Article
    4. Loss of TRIM31 promotes breast cancer progression through regulating K48- and K63-linked ubiquitination of p53. Guo Y, et al. Cell Death Dis, 2021 Oct 14. PMID 34650049, Free PMC Article
    5. Genetic and Proteomic Interrogation of Lower Confidence Candidate Genes Reveals Signaling Networks in β-Catenin-Active Cancers. Rosenbluh J, et al. Cell Syst, 2016 Sep 28. PMID 27684187, Free PMC Article

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. WDR87 interacts with CFAP47 protein in the middle piece of spermatozoa flagella to participate in sperm tail assembly.
      Title: WDR87 interacts with CFAP47 protein in the middle piece of spermatozoa flagella to participate in sperm tail assembly.
    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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ52608

    General protein information

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    Preferred Names
    WD repeat-containing protein 87
    Names
    testis development protein NYD-SP11

    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_001291088.2 → NP_001278017.1  WD repeat-containing protein 87 isoform 1

      See identical proteins and their annotated locations for NP_001278017.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1)
      Source sequence(s)
      ABBA01040648, AC016582, AK302913
      Consensus CDS
      CCDS74356.1
      UniProtKB/TrEMBL
      A0AA75ISB7
      Related
      ENSP00000405012.2, ENST00000447313.7
      Conserved Domains (6) summary
      COG1340
      Location:1628 → 1920
      COG1340; Uncharacterized coiled-coil protein, contains DUF342 domain [Function unknown]
      COG2319
      Location:251 → 646
      WD40; WD40 repeat [General function prediction only]
      sd00039
      Location:202 → 238
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:252 → 531
      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 ...
      cl15838
      Location:1621 → 1744
      Phage_GPO; Phage capsid scaffolding protein (GPO) serine peptidase
      cl19219
      Location:1834 → 1920
      DUF342; Protein of unknown function (DUF342)

    2. NM_031951.5 → NP_114157.4  WD repeat-containing protein 87 isoform 2

      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 than isoform 1.
      Source sequence(s)
      ABBA01040648, AC016582, AK128826, HY010892
      Consensus CDS
      CCDS46063.1
      UniProtKB/Swiss-Prot
      E7ESW6, Q6ZQQ6, Q9BWV9
      Related
      ENSP00000368025.3, ENST00000303868.5
      Conserved Domains (4) summary
      PTZ00121
      Location:1345 → 2117
      PTZ00121; MAEBL; Provisional
      COG2319
      Location:212 → 607
      WD40; WD40 repeat [General function prediction only]
      PRK12704
      Location:2073 → 2174
      PRK12704; phosphodiesterase; Provisional
      sd00039
      Location:163 → 199
      7WD40; WD40 repeat [structural motif]

    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_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      37884823..37906697 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047439499.1 → XP_047295455.1  WD repeat-containing protein 87 isoform X2

    2. XM_011527360.3 → XP_011525662.2  WD repeat-containing protein 87 isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      40686877..40708749 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054322303.1 → XP_054178278.1  WD repeat-containing protein 87 isoform X2

    2. XM_054322302.1 → XP_054178277.1  WD repeat-containing protein 87 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6ZQQ6.4 GenPept UniProtKB/Swiss-Prot:Q6ZQQ6

    Gene LinkOut

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

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