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    Jade3 jade family PHD finger 3 [ Mus musculus (house mouse) ]

    Gene ID: 382207, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Jade3provided by MGI
    Official Full Name
    jade family PHD finger 3provided by MGI
    Primary source
    MGI:MGI:2148019
    See related
    Ensembl:ENSMUSG00000037315 AllianceGenome:MGI:2148019
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Phf16; mKIAA0215; 5730598B06
    Summary
    Predicted to enable metal ion binding activity. Predicted to be involved in regulation of cell cycle; regulation of cell growth; and regulation of nucleobase-containing compound metabolic process. Predicted to be located in nucleoplasm. Predicted to be part of histone acetyltransferase complex. Is expressed in several structures, including alimentary system; genitourinary system; neocortex; nose; and respiratory system. Orthologous to human JADE3 (jade family PHD finger 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in placenta adult (RPKM 22.3), CNS E18 (RPKM 3.8) and 11 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Jade3 in Genome Data Viewer
    Location:
    X A1.3; X 15.9 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (20291611..20386178)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (20425312..20519939)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene retinitis pigmentosa 2 homolog Neighboring gene transcription initiation factor IIA subunit 1-like Neighboring gene high mobility group box 2 pseudogene Neighboring gene STARR-seq mESC enhancer starr_46877 Neighboring gene STARR-seq mESC enhancer starr_46878 Neighboring gene ubiquitin-like modifier activating enzyme 3 pseudogene Neighboring gene regucalcin

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Identification of Phf16 and Pnpla3 as new adipogenic factors regulated by phytochemicals. Chang SH, et al. J Cell Biochem, 2019 Mar. PMID 30272815, Free PMC Article
    2. Identification of Jade1, a gene encoding a PHD zinc finger protein, in a gene trap mutagenesis screen for genes involved in anteroposterior axis development. Tzouanacou E, et al. Mol Cell Biol, 2003 Dec. PMID 14612400, Free PMC Article
    3. Phenotypic annotation of the mouse X chromosome. Cox BJ, et al. Genome Res, 2010 Aug. PMID 20548051, Free PMC Article
    4. Prediction of the coding sequences of mouse homologues of KIAA gene: III. the complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2003 Aug 31. PMID 14621295
    5. Cell-Type-Specific Gene Expression in Developing Mouse Neocortex: Intermediate Progenitors Implicated in Axon Development. Bedogni F, et al. Front Mol Neurosci, 2021. PMID 34321999, Free PMC Article

    See all (23) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Gene trapped (1) 

    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 MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables molecular_function ND
    No biological Data available
    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 DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell growth ISS
    Inferred from Sequence or Structural Similarity
    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
    Names
    PHD finger protein 16
    jade family PHD finger protein 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_001289684.2 → NP_001276613.1  protein Jade-3 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL672073, BX294384
      UniProtKB/TrEMBL
      A0A140T8R5
      Conserved Domains (2) summary
      pfam10513
      Location:3 → 74
      EPL1; Enhancer of polycomb-like
      cl22851
      Location:152 → 262
      PHD_SF; PHD finger superfamily

    2. NM_001406239.1 → NP_001393168.1  protein Jade-3 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL672073, BX294384

    3. NM_001406240.1 → NP_001393169.1  protein Jade-3 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL672073, BX294384

    4. NM_001406241.1 → NP_001393170.1  protein Jade-3 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AL672073, BX294384
      UniProtKB/Swiss-Prot
      A1L3T5, Q6IE82, Q6ZQG2
      Related
      ENSMUSP00000048529.7, ENSMUST00000043693.7

    5. NM_199317.3 → NP_955021.3  protein Jade-3 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AL672073, BX294384
      Consensus CDS
      CCDS30042.2
      UniProtKB/Swiss-Prot
      A1L3T5, Q6IE82, Q6ZQG2
      Related
      ENSMUSP00000111042.6, ENSMUST00000115384.9

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000086.8 Reference GRCm39 C57BL/6J

      Range
      20291611..20386178
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6IE82.1 GenPept UniProtKB/Swiss-Prot:Q6IE82

    Gene LinkOut

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