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

Gene ID: 84872, updated on 5-Mar-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 production of miRNAs involved in gene silencing by miRNA and posttranscriptional regulation of gene expression. Predicted to be active in cytoplasm and nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis (RPKM 6.2), ovary (RPKM 4.7) and 25 other tissues See more
Orthologs
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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_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (56118266..56127514)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (56085864..56095112)
105.20220307 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 (28) 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)

Genotypes

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_2023_10

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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