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    Zcchc12 zinc finger CCHC-type containing 12 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313436, updated on 3-Apr-2024

    Summary

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    Official Symbol
    Zcchc12provided by RGD
    Official Full Name
    zinc finger CCHC-type containing 12provided by RGD
    Primary source
    RGD:1359439
    See related
    Ensembl:ENSRNOG00000013162 AllianceGenome:RGD:1359439
    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
    Summary
    Predicted to enable SUMO binding activity and transcription coactivator activity. Predicted to act upstream of or within BMP signaling pathway and positive regulation of transcription by RNA polymerase II. Predicted to be located in PML body and nuclear speck. Predicted to be active in nucleus. Orthologous to several human genes including ZCCHC12 (zinc finger CCHC-type containing 12). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 356.4) and Lung (RPKM 18.2) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Zcchc12 in Genome Data Viewer
    Location:
    Xq34
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (120299138..120302465)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (115433444..115436691)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (122808581..122811790)

    Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene dedicator of cytokinesis 11 Neighboring gene uncharacterized LOC134484095 Neighboring gene interleukin 13 receptor subunit alpha 1 Neighboring gene U6 spliceosomal RNA Neighboring gene LON peptidase N-terminal domain and ring finger 3 Neighboring gene cancer/testis antigen family 47, member B1

    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. XLMR candidate mouse gene, Zcchc12 (Sizn1) is a novel marker of Cajal-Retzius cells. Cho G, et al. Gene Expr Patterns, 2011 Mar-Apr. PMID 21172456, Free PMC Article
    2. SUMO interaction motifs in Sizn1 are required for promyelocytic leukemia protein nuclear body localization and for transcriptional activation. Cho G, et al. J Biol Chem, 2009 Jul 17. PMID 19416967, Free PMC Article
    3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables SUMO binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within BMP signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in PML body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger CCHC domain-containing protein 12
    Names
    zinc finger, CCHC domain containing 12

    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_001014065.2 → NP_001014087.1  zinc finger CCHC domain-containing protein 12

      See identical proteins and their annotated locations for NP_001014087.1

      Status: VALIDATED

      Source sequence(s)
      BC089115, BF405776
      UniProtKB/Swiss-Prot
      Q5HZA3
      UniProtKB/TrEMBL
      A6JME5, A6JME9
      Conserved Domains (1) summary
      pfam14893
      Location:14 → 212
      PNMA

    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_086039.1 Reference GRCr8

      Range
      120299138..120302465
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006257451.5 → XP_006257513.1  zinc finger CCHC domain-containing protein 12 isoform X1

      See identical proteins and their annotated locations for XP_006257513.1

      UniProtKB/Swiss-Prot
      Q5HZA3
      UniProtKB/TrEMBL
      A6JME5, A6JME9
      Conserved Domains (1) summary
      pfam14893
      Location:14 → 212
      PNMA

    2. XM_063279985.1 → XP_063136055.1  zinc finger CCHC domain-containing protein 12 isoform X1

      UniProtKB/Swiss-Prot
      Q5HZA3
      UniProtKB/TrEMBL
      A6JME5

    3. XM_006257452.5 → XP_006257514.1  zinc finger CCHC domain-containing protein 12 isoform X1

      See identical proteins and their annotated locations for XP_006257514.1

      UniProtKB/Swiss-Prot
      Q5HZA3
      UniProtKB/TrEMBL
      A6JME5, A6JME9
      Related
      ENSRNOP00000017567.4
      Conserved Domains (1) summary
      pfam14893
      Location:14 → 212
      PNMA

    4. XM_006257449.5 → XP_006257511.1  zinc finger CCHC domain-containing protein 12 isoform X1

      See identical proteins and their annotated locations for XP_006257511.1

      UniProtKB/Swiss-Prot
      Q5HZA3
      UniProtKB/TrEMBL
      A6JME5, A6JME9
      Conserved Domains (1) summary
      pfam14893
      Location:14 → 212
      PNMA

    5. XM_006257448.5 → XP_006257510.1  zinc finger CCHC domain-containing protein 12 isoform X1

      See identical proteins and their annotated locations for XP_006257510.1

      UniProtKB/Swiss-Prot
      Q5HZA3
      UniProtKB/TrEMBL
      A6JME5, A6JME9
      Conserved Domains (1) summary
      pfam14893
      Location:14 → 212
      PNMA

    6. XM_017602034.3 → XP_017457523.1  zinc finger CCHC domain-containing protein 12 isoform X1

      UniProtKB/Swiss-Prot
      Q5HZA3
      UniProtKB/TrEMBL
      A6JME5, A6JME9
      Related
      ENSRNOP00000079816.1
      Conserved Domains (1) summary
      pfam14893
      Location:14 → 212
      PNMA

    7. XM_017602036.3 → XP_017457525.1  zinc finger CCHC domain-containing protein 12 isoform X1

      UniProtKB/Swiss-Prot
      Q5HZA3
      UniProtKB/TrEMBL
      A6JME5, A6JME9
      Conserved Domains (1) summary
      pfam14893
      Location:14 → 212
      PNMA

    8. XM_063279986.1 → XP_063136056.1  zinc finger CCHC domain-containing protein 12 isoform X1

      UniProtKB/Swiss-Prot
      Q5HZA3
      UniProtKB/TrEMBL
      A6JME5

    9. XM_063279988.1 → XP_063136058.1  zinc finger CCHC domain-containing protein 12 isoform X1

      UniProtKB/Swiss-Prot
      Q5HZA3
      UniProtKB/TrEMBL
      A6JME5

    10. XM_063279987.1 → XP_063136057.1  zinc finger CCHC domain-containing protein 12 isoform X1

      UniProtKB/Swiss-Prot
      Q5HZA3
      UniProtKB/TrEMBL
      A6JME5

    11. XM_017602035.3 → XP_017457524.1  zinc finger CCHC domain-containing protein 12 isoform X1

      UniProtKB/Swiss-Prot
      Q5HZA3
      UniProtKB/TrEMBL
      A6JME5, A6JME9
      Conserved Domains (1) summary
      pfam14893
      Location:14 → 212
      PNMA
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5HZA3.1 GenPept UniProtKB/Swiss-Prot:Q5HZA3

    Gene LinkOut

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

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