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    Jade3 jade family PHD finger 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 299305, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Jade3provided by RGD
    Official Full Name
    jade family PHD finger 3provided by RGD
    Primary source
    RGD:1563945
    See related
    EnsemblRapid:ENSRNOG00000039837 AllianceGenome:RGD:1563945
    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
    RGD1563945
    Summary
    Predicted to enable metal ion binding activity. Predicted to be involved in regulation of DNA biosynthetic process; regulation of DNA replication; and regulation of cell cycle. Predicted to be located in nucleoplasm. Predicted to be part of histone acetyltransferase complex. Orthologous to human JADE3 (jade family PHD finger 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 56.5), Kidney (RPKM 48.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Jade3 in Genome Data Viewer
    Location:
    Xq11
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (4222369..4424164, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (1668873..1848781, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (1885927..2038639, complement)

    Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene RuvB-like AAA ATPase 1, pseudogene 1 Neighboring gene regucalcin Neighboring gene RP2 activator of ARL3 GTPase Neighboring gene ribosomal protein L7, pseudogene 28

    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. ING tumor suppressor proteins are critical regulators of chromatin acetylation required for genome expression and perpetuation. Doyon Y, et al. Mol Cell, 2006 Jan 6. PMID 16387653
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    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 regulation of DNA biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of histone acetyltransferase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of histone acetyltransferase complex 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
    protein Jade-3

    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_001271265.1 → NP_001258194.1  protein Jade-3

      Status: VALIDATED

      Source sequence(s)
      FN798246, FN803984, JAXUCZ010000021
      UniProtKB/TrEMBL
      F1M6J5
      Related
      ENSRNOP00000057855.5, ENSRNOT00000061140.6
      Conserved Domains (3) summary
      COG5141
      Location:139 → 510
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      pfam10513
      Location:91 → 178
      EPL1; Enhancer of polycomb-like
      cl22851
      Location:256 → 366
      PHD_SF; PHD finger superfamily

    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
      4222369..4424164 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039099579.2 → XP_038955507.1  protein Jade-3 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZTH1
      Conserved Domains (3) summary
      COG5141
      Location:165 → 536
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      pfam10513
      Location:74 → 204
      EPL1; Enhancer of polycomb-like
      cl22851
      Location:282 → 392
      PHD_SF; PHD finger superfamily

    2. XM_039099577.2 → XP_038955505.1  protein Jade-3 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZTH1
      Conserved Domains (3) summary
      COG5141
      Location:165 → 536
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      pfam10513
      Location:74 → 204
      EPL1; Enhancer of polycomb-like
      cl22851
      Location:282 → 392
      PHD_SF; PHD finger superfamily

    3. XM_063279878.1 → XP_063135948.1  protein Jade-3 isoform X2

      UniProtKB/TrEMBL
      F1M6J5

    4. XM_039099578.2 → XP_038955506.1  protein Jade-3 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZTH1
      Conserved Domains (3) summary
      COG5141
      Location:165 → 536
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      pfam10513
      Location:74 → 204
      EPL1; Enhancer of polycomb-like
      cl22851
      Location:282 → 392
      PHD_SF; PHD finger superfamily

    5. XM_039099576.2 → XP_038955504.1  protein Jade-3 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZTH1
      Related
      ENSRNOP00000082402.1, ENSRNOT00000103250.2
      Conserved Domains (3) summary
      COG5141
      Location:165 → 536
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      pfam10513
      Location:74 → 204
      EPL1; Enhancer of polycomb-like
      cl22851
      Location:282 → 392
      PHD_SF; PHD finger superfamily

    6. XM_063279879.1 → XP_063135949.1  protein Jade-3 isoform X2

      UniProtKB/TrEMBL
      F1M6J5

    7. XM_039099580.2 → XP_038955508.1  protein Jade-3 isoform X2

      UniProtKB/TrEMBL
      F1M6J5
      Conserved Domains (3) summary
      COG5141
      Location:139 → 510
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      pfam10513
      Location:91 → 178
      EPL1; Enhancer of polycomb-like
      cl22851
      Location:256 → 366
      PHD_SF; PHD finger superfamily
    Nucleotide Protein Strain
    Heading Accession and Version

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