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ZC3H12B zinc finger CCCH-type containing 12B [ Homo sapiens (human) ]

Gene ID: 340554, updated on 3-Apr-2024

Summary

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Official Symbol
ZC3H12Bprovided by HGNC
Official Full Name
zinc finger CCCH-type containing 12Bprovided by HGNC
Primary source
HGNC:HGNC:17407
See related
Ensembl:ENSG00000102053 MIM:300889; AllianceGenome:HGNC:17407
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
MCPIP2; CXorf32
Summary
The protein encoded by this gene belongs to a family of CCCH-type zinc finger proteins that are involved in the proinflammatory activation of macrophages. The exact function of this family member is unknown, but it is thought to function as a ribonuclease. [provided by RefSeq, May 2010]
Expression
Ubiquitous expression in brain (RPKM 1.1), ovary (RPKM 0.5) and 22 other tissues See more
Orthologs
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Genomic context

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See ZC3H12B in Genome Data Viewer
Location:
Xq11.2-q12
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (65034826..65507887)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (63460180..63934332)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (64254706..64727767)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373239 Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:64195850-64196393 Neighboring gene zinc finger C4H2-type containing Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20879 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20880 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29712 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:64394379-64394544 Neighboring gene karyopherin subunit alpha 2 pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:64416296-64416796 Neighboring gene Sharpr-MPRA regulatory region 9838 Neighboring gene NANOG hESC enhancer GRCh37_chrX:64519957-64520668 Neighboring gene chaperonin containing TCP1 subunit 4 pseudogene 2 Neighboring gene mortality factor 4 like 1 pseudogene 5 Neighboring gene NANOG hESC enhancer GRCh37_chrX:64612699-64613200 Neighboring gene PRXL2C pseudogene 1 Neighboring gene NANOG hESC enhancer GRCh37_chrX:64658617-64659137 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chrX:64683306-64683834 Neighboring gene TLE family member 1 pseudogene 1 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chrX:64713210-64713789 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:64722192-64722692 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:64722693-64723193 Neighboring gene AP1M2 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29713 Neighboring gene LAS1 like ribosome biogenesis factor Neighboring gene FERM domain containing 8 pseudogene 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 homeostatic function of Regnase-2 restricts neuroinflammation. Sowinska W, et al. FASEB J, 2023 Mar. PMID 36753401, Free PMC Article
  2. Bayesian Genome-wide TWAS Method to Leverage both cis- and trans-eQTL Information through Summary Statistics. Luningham JM, et al. Am J Hum Genet, 2020 Oct 1. PMID 32961112, Free PMC Article
  3. ZC3H12B/MCPIP2, a new active member of the ZC3H12 family. Wawro M, et al. RNA, 2019 Jul. PMID 30988100, Free PMC Article
  4. A novel CCCH-zinc finger protein family regulates proinflammatory activation of macrophages. Liang J, et al. J Biol Chem, 2008 Mar 7. PMID 18178554
  5. POH1 contributes to hyperactivation of TGF-β signaling and facilitates hepatocellular carcinoma metastasis through deubiquitinating TGF-β receptors and caveolin-1. Wang B, et al. EBioMedicine, 2019 Mar. PMID 30745168, Free PMC Article

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The homeostatic function of Regnase-2 restricts neuroinflammation.
    Title: The homeostatic function of Regnase-2 restricts neuroinflammation.
  2. Bayesian Genome-wide TWAS Method to Leverage both cis- and trans-eQTL Information through Summary Statistics.
    Title: Bayesian Genome-wide TWAS Method to Leverage both cis- and trans-eQTL Information through Summary Statistics.
  3. MCPIP1, 2, 3, and 4, encoded by four genes, Zc3h12a, Zc3h12b, Zc3h12c, and Zc3h12d, respectively, regulates macrophage activation.
    Title: A novel CCCH-zinc finger protein family regulates proinflammatory activation of macrophages.
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

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA endonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasmic ribonucleoprotein granule IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
probable ribonuclease ZC3H12B
Names
MCP-induced protein 2
zinc finger CCCH domain-containing protein 12B

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.

Genomic

  1. NG_021264.2 RefSeqGene

    Range
    5001..24153
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001010888.4 → NP_001010888.3  probable ribonuclease ZC3H12B

    See identical proteins and their annotated locations for NP_001010888.3

    Status: VALIDATED

    Source sequence(s)
    AL050306, AL355606, AL441964, AL591202, Z83841
    Consensus CDS
    CCDS48131.2
    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0
    UniProtKB/TrEMBL
    A0A8Q3WM69
    Related
    ENSP00000340839.4, ENST00000338957.5
    Conserved Domains (1) summary
    pfam11977
    Location:189 → 345
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

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_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    65034826..65507887
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047442075.1 → XP_047298031.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  2. XM_047442077.1 → XP_047298033.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  3. XM_047442076.1 → XP_047298032.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  4. XM_047442074.1 → XP_047298030.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  5. XM_047442079.1 → XP_047298035.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  6. XM_017029484.2 → XP_016884973.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0
    UniProtKB/TrEMBL
    A0A8Q3WM69
    Conserved Domains (1) summary
    pfam11977
    Location:189 → 345
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

  7. XM_047442078.1 → XP_047298034.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  8. XM_047442080.1 → XP_047298036.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  9. XM_017029479.2 → XP_016884968.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0
    UniProtKB/TrEMBL
    A0A8Q3WM69
    Conserved Domains (1) summary
    pfam11977
    Location:189 → 345
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

  10. XM_017029480.2 → XP_016884969.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0
    UniProtKB/TrEMBL
    A0A8Q3WM69
    Conserved Domains (1) summary
    pfam11977
    Location:189 → 345
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

  11. XM_017029481.2 → XP_016884970.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0
    UniProtKB/TrEMBL
    A0A8Q3WM69
    Conserved Domains (1) summary
    pfam11977
    Location:189 → 345
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

  12. XM_017029482.2 → XP_016884971.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0
    UniProtKB/TrEMBL
    A0A8Q3WM69
    Conserved Domains (1) summary
    pfam11977
    Location:189 → 345
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

  13. XM_017029483.2 → XP_016884972.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0
    UniProtKB/TrEMBL
    A0A8Q3WM69
    Conserved Domains (1) summary
    pfam11977
    Location:189 → 345
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

  14. XM_011530939.3 → XP_011529241.1  probable ribonuclease ZC3H12B isoform X1

    See identical proteins and their annotated locations for XP_011529241.1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0
    UniProtKB/TrEMBL
    A0A8Q3WM69
    Related
    ENSP00000512584.1, ENST00000696370.1
    Conserved Domains (1) summary
    pfam11977
    Location:189 → 345
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    63460180..63934332
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054326986.1 → XP_054182961.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  2. XM_054326980.1 → XP_054182955.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  3. XM_054326981.1 → XP_054182956.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  4. XM_054326975.1 → XP_054182950.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  5. XM_054326985.1 → XP_054182960.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  6. XM_054326983.1 → XP_054182958.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  7. XM_054326984.1 → XP_054182959.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  8. XM_054326987.1 → XP_054182962.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  9. XM_054326976.1 → XP_054182951.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  10. XM_054326977.1 → XP_054182952.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  11. XM_054326978.1 → XP_054182953.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  12. XM_054326979.1 → XP_054182954.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  13. XM_054326982.1 → XP_054182957.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0

  14. XM_054326988.1 → XP_054182963.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/Swiss-Prot
    B2RTQ3, E9PAJ6, Q5H9C0, Q5HYM0
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5HYM0.3 GenPept UniProtKB/Swiss-Prot:Q5HYM0

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