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zc3h12b zinc finger CCCH-type containing 12B [ Danio rerio (zebrafish) ]

Gene ID: 100002370, updated on 4-Jan-2025

Summary

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Official Symbol
zc3h12bprovided by ZNC
Official Full Name
zinc finger CCCH-type containing 12Bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-060526-290
See related
Ensembl:ENSDARG00000062463 AllianceGenome:ZFIN:ZDB-GENE-060526-290
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
si:dkey-286f3.6
Summary
Enables mRNA 3'-UTR binding activity. Involved in post-transcriptional regulation of gene expression. Is expressed in optic vesicle; presumptive neural retina; retina; and telencephalon. Orthologous to human ZC3H12B (zinc finger CCCH-type containing 12B). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs
human mouse all
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Genomic context

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See zc3h12b in Genome Data Viewer
Location:
chromosome: 5
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (22085362..22109048)
105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (21579977..21608197)

Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene shisa family member 2a Neighboring gene zinc finger, C4H2 domain containing Neighboring gene uncharacterized LOC110438643 Neighboring gene LAS1 like ribosome biogenesis factor Neighboring gene moesin a

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. The evolution and immunomodulatory role of Zc3h12 proteins in zebrafish (Danio rerio). Yang S, et al. Int J Biol Macromol, 2023 Jun 1. PMID 37001786
  2. Evidence for the conservation of miR-223 in zebrafish (Danio rerio): Implications for function. Roberto VP, et al. Gene, 2015 Jul 15. PMID 25869932
  3. Comprehensive expression map of transcription regulators in the adult zebrafish telencephalon reveals distinct neurogenic niches. Diotel N, et al. J Comp Neurol, 2015 Jun 1. PMID 25556858, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables endonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables mRNA 3'-UTR binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nuclease activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in post-transcriptional regulation of gene expression IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
probable ribonuclease ZC3H12B

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007116.7 Reference GRCz11 Primary Assembly

    Range
    22085362..22109048
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021476439.2 → XP_021332114.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/TrEMBL
    A0A8M2BCG1
    Conserved Domains (1) summary
    pfam11977
    Location:350 → 505
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

  2. XM_021476440.2 → XP_021332115.1  probable ribonuclease ZC3H12B isoform X2

    UniProtKB/TrEMBL
    A0A8M9QEJ2
    Conserved Domains (1) summary
    pfam11977
    Location:350 → 505
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

  3. XM_021476441.2 → XP_021332116.1  probable ribonuclease ZC3H12B isoform X3

    UniProtKB/TrEMBL
    A0A8M9Q9A6
    Conserved Domains (1) summary
    pfam11977
    Location:225 → 380
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

  4. XM_068221429.1 → XP_068077530.1  probable ribonuclease ZC3H12B isoform X4

    Related
    ENSDARP00000118051.1, ENSDART00000143676.2

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394572.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    77644..104574
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005165208.5 → XP_005165265.1  probable ribonuclease ZC3H12B isoform X1

    UniProtKB/TrEMBL
    A0A8M2BCG1
    Conserved Domains (1) summary
    pfam11977
    Location:350 → 505
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

  2. XM_005165209.5 → XP_005165266.1  probable ribonuclease ZC3H12B isoform X2

    UniProtKB/TrEMBL
    A0A8M9QEJ2
    Conserved Domains (1) summary
    pfam11977
    Location:350 → 505
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

  3. XM_021471586.2 → XP_021327261.1  probable ribonuclease ZC3H12B isoform X3

    UniProtKB/TrEMBL
    A0A8M9Q9A6
    Conserved Domains (1) summary
    pfam11977
    Location:225 → 380
    RNase_Zc3h12a; Zc3h12a-like Ribonuclease NYN domain

  4. XM_068218217.1 → XP_068074318.1  probable ribonuclease ZC3H12B isoform X4

Nucleotide Protein Strain
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