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Zc3h13 zinc finger CCCH type containing 13 [ Rattus norvegicus (Norway rat) ]

Gene ID: 305955, updated on 27-Nov-2024

Summary

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Official Symbol
Zc3h13provided by RGD
Official Full Name
zinc finger CCCH type containing 13provided by RGD
Primary source
RGD:1307729
See related
EnsemblRapid:ENSRNOG00000011237 AllianceGenome:RGD:1307729
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1307729
Summary
Predicted to enable metal ion binding activity. Predicted to be involved in mRNA processing and regulation of stem cell population maintenance. Predicted to be located in nucleoplasm. Predicted to be part of RNA N6-methyladenosine methyltransferase complex. Predicted to be active in nuclear speck. Orthologous to human ZC3H13 (zinc finger CCCH-type containing 13). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Kidney (RPKM 75.7), Spleen (RPKM 72.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Zc3h13 in Genome Data Viewer
Location:
15q11
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (57016686..57081201)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (50607335..50671802)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (57340522..57405287)

Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene tRNA methyltransferase 10A, pseudogene 1 Neighboring gene U6 spliceosomal RNA Neighboring gene carboxypeptidase B2 Neighboring gene siah E3 ubiquitin protein ligase family member 3 Neighboring gene uncharacterized LOC120097040 Neighboring gene chibby family member 2 Neighboring gene GABA type A receptor associated protein like 2, pseudogene 2 Neighboring gene glutamate-rich 6B Neighboring gene component of oligomeric golgi complex 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Zc3h13 Regulates Nuclear RNA m(6)A Methylation and Mouse Embryonic Stem Cell Self-Renewal. Wen J, et al. Mol Cell, 2018 Mar 15. PMID 29547716, Free PMC Article
  2. Identification of Wilms' tumor 1-associating protein complex and its role in alternative splicing and the cell cycle. Horiuchi K, et al. J Biol Chem, 2013 Nov 15. PMID 24100041, Free PMC Article
  3. Phosphorylation and degradation of tomosyn-2 de-represses insulin secretion. Bhatnagar S, et al. J Biol Chem, 2014 Sep 5. PMID 25002582, Free PMC Article
  4. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
  5. VIRMA mediates preferential m(6)A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. Yue Y, et al. Cell Discov, 2018. PMID 29507755, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

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 RGD

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in mRNA processing ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of stem cell population maintenance ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of RNA N6-methyladenosine methyltransferase complex ISO
Inferred from Sequence Orthology
more info
  
is_active_in nuclear speck IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
zinc finger CCCH domain-containing protein 13

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_001170471.1 → NP_001163942.1  zinc finger CCCH domain-containing protein 13

    See identical proteins and their annotated locations for NP_001163942.1

    Status: VALIDATED

    Source sequence(s)
    BC158717, JAXUCZ010000015
    UniProtKB/TrEMBL
    E9PSN4
    Related
    ENSRNOP00000015467.5, ENSRNOT00000015467.7
    Conserved Domains (1) summary
    pfam00642
    Location:42 → 63
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086033.1 Reference GRCr8

    Range
    57016686..57081201
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063274280.1 → XP_063130350.1  zinc finger CCCH domain-containing protein 13 isoform X2

  2. XM_063274281.1 → XP_063130351.1  zinc finger CCCH domain-containing protein 13 isoform X3

  3. XM_006252316.5 → XP_006252378.1  zinc finger CCCH domain-containing protein 13 isoform X1

    See identical proteins and their annotated locations for XP_006252378.1

    UniProtKB/TrEMBL
    E9PSN4
    Conserved Domains (1) summary
    pfam00642
    Location:42 → 63
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

  4. XM_017599690.3 → XP_017455179.1  zinc finger CCCH domain-containing protein 13 isoform X4

Nucleotide Protein Strain
Heading Accession and Version

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