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    ZC3H10 zinc finger CCCH-type containing 10 [ Homo sapiens (human) ]

    Gene ID: 84872, updated on 10-Dec-2024

    Summary

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    Official Symbol
    ZC3H10provided by HGNC
    Official Full Name
    zinc finger CCCH-type containing 10provided by HGNC
    Primary source
    HGNC:HGNC:25893
    See related
    Ensembl:ENSG00000135482 AllianceGenome:HGNC:25893
    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
    ZC3HDC10
    Summary
    Enables miRNA binding activity. Involved in negative regulation of miRNA processing. Acts upstream of with a positive effect on post-transcriptional regulation of gene expression. Located in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis (RPKM 6.2), ovary (RPKM 4.7) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See ZC3H10 in Genome Data Viewer
    Location:
    12q13.2
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (56118266..56127514)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (56085864..56095112)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (56512050..56521298)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6469 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6470 Neighboring gene proliferation-associated 2G4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6471 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4544 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:56514939-56515936 Neighboring gene ribosomal protein L41 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6472 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:56521723-56522384 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6474 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6475 Neighboring gene extended synaptotagmin 1 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr12:56536437-56537636 Neighboring gene uncharacterized LOC124902943 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6476 Neighboring gene uncharacterized LOC124902942 Neighboring gene MYL6B antisense RNA 1 Neighboring gene myosin light chain 6B

    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. Zc3h10 is a novel mitochondrial regulator. Audano M, et al. EMBO Rep, 2018 Apr. PMID 29507079, Free PMC Article
    2. A HOTAIR regulatory element modulates glioma cell sensitivity to temozolomide through long-range regulation of multiple target genes. Zhang L, et al. Genome Res, 2020 Feb. PMID 31953347, Free PMC Article
    3. Zc3h10 Acts as a Transcription Factor and Is Phosphorylated to Activate the Thermogenic Program. Yi D, et al. Cell Rep, 2019 Nov 26. PMID 31775033, Free PMC Article
    4. Gene trapping identifies a putative tumor suppressor and a new inducer of cell migration. Guardiola-Serrano F, et al. Biochem Biophys Res Commun, 2008 Nov 28. PMID 18814840
    5. Development and application of a DNA microarray-based yeast two-hybrid system. Suter B, et al. Nucleic Acids Res, 2013 Feb 1. PMID 23275563, Free PMC Article

    See all (29) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. A HOTAIR regulatory element modulates glioma cell sensitivity to temozolomide through long-range regulation of multiple target genes.
      Title: A HOTAIR regulatory element modulates glioma cell sensitivity to temozolomide through long-range regulation of multiple target genes.
    2. Zc3h10 Acts as a Transcription Factor and Is Phosphorylated to Activate the Thermogenic Program.
      Title: Zc3h10 Acts as a Transcription Factor and Is Phosphorylated to Activate the Thermogenic Program.
    3. our study identifies Zc3h10 as a novel mitochondrial regulator.
      Title: Zc3h10 is a novel mitochondrial regulator.
    4. Observational study of gene-disease association. (HuGE Navigator)
      Title: Coeliac disease-associated risk variants in TNFAIP3 and REL implicate altered NF-kappaB signalling.
    5. ZC3H10 inhibits the anchorage independent growth of tumor cells, which is consistent with a tumor suppressor function.
      Title: Gene trapping identifies a putative tumor suppressor and a new inducer of cell migration.
    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

    Potential readthrough

    Included gene: ESYT1

    Homology

    Clone Names

    • FLJ14451

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables miRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of miRNA processing IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_positive_effect post-transcriptional regulation of gene expression IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of RNA splicing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    zinc finger CCCH domain-containing protein 10
    Names
    zinc finger CCCH-type domain containing 10

    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_001303124.2 → NP_001290053.1  zinc finger CCCH domain-containing protein 10

      See identical proteins and their annotated locations for NP_001290053.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. All three variants encode the same protein.
      Source sequence(s)
      AC034102, BC018708, DA534848
      Consensus CDS
      CCDS8903.1
      UniProtKB/Swiss-Prot
      Q96K80
      Conserved Domains (2) summary
      smart00356
      Location:134 → 158
      ZnF_C3H1; zinc finger
      pfam15743
      Location:236 → 293
      SPATA1_C; Spermatogenesis-associated C-terminus

    2. NM_001303125.2 → NP_001290054.1  zinc finger CCCH domain-containing protein 10

      See identical proteins and their annotated locations for NP_001290054.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. All three variants encode the same protein.
      Source sequence(s)
      AC034102, BC018708, HY035162
      Consensus CDS
      CCDS8903.1
      UniProtKB/Swiss-Prot
      Q96K80
      Conserved Domains (2) summary
      smart00356
      Location:134 → 158
      ZnF_C3H1; zinc finger
      pfam15743
      Location:236 → 293
      SPATA1_C; Spermatogenesis-associated C-terminus

    3. NM_032786.3 → NP_116175.1  zinc finger CCCH domain-containing protein 10

      See identical proteins and their annotated locations for NP_116175.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the predominant transcript. All three variants encode the same protein.
      Source sequence(s)
      AC034102, BC018708
      Consensus CDS
      CCDS8903.1
      UniProtKB/Swiss-Prot
      Q96K80
      Related
      ENSP00000257940.2, ENST00000257940.7
      Conserved Domains (2) summary
      smart00356
      Location:134 → 158
      ZnF_C3H1; zinc finger
      pfam15743
      Location:236 → 293
      SPATA1_C; Spermatogenesis-associated C-terminus

    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_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      56118266..56127514
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      56085864..56095112
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q96K80.1 GenPept UniProtKB/Swiss-Prot:Q96K80

    Gene LinkOut

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

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