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    Jade1 jade family PHD finger 1 [ Mus musculus (house mouse) ]

    Gene ID: 269424, updated on 21-Apr-2024

    Summary

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    Official Symbol
    Jade1provided by MGI
    Official Full Name
    jade family PHD finger 1provided by MGI
    Primary source
    MGI:MGI:1925835
    See related
    Ensembl:ENSMUSG00000025764 AllianceGenome:MGI:1925835
    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
    Phf17; mKIAA1807; D530048A03Rik
    Summary
    Predicted to enable transcription coactivator activity. Predicted to be involved in histone acetylation and negative regulation of canonical Wnt signaling pathway. Predicted to act upstream of or within negative regulation of G1/S transition of mitotic cell cycle. Located in cytosol and nucleus. Is expressed in several structures, including early conceptus; embryo ectoderm; genitourinary system; head somite; and primitive streak. Orthologous to human JADE1 (jade family PHD finger 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in placenta adult (RPKM 17.9), bladder adult (RPKM 5.1) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    3 B; 3 19.88 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (41510169..41571299)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (41555734..41616864)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_07488 Neighboring gene RIKEN cDNA 2400006E01 gene Neighboring gene pluripotency associated transcript 4 Neighboring gene STARR-seq mESC enhancer starr_07494 Neighboring gene uncharacterized LOC118568628 Neighboring gene sodium channel and clathrin linker 1 Neighboring gene STARR-seq mESC enhancer starr_07506 Neighboring gene STARR-seq mESC enhancer starr_07507 Neighboring gene STARR-seq mESC enhancer starr_07508 Neighboring gene STARR-seq mESC enhancer starr_07509 Neighboring gene STARR-positive B cell enhancer mm9_chr3:41546357-41546658 Neighboring gene DNA segment, Chr 3, ERATO Doi 751, expressed Neighboring gene STARR-seq mESC enhancer starr_07510

    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
    • 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. A novel non-coding RNA lncRNA-JADE connects DNA damage signalling to histone H4 acetylation. Wan G, et al. EMBO J, 2013 Oct 30. PMID 24097061, Free PMC Article
    2. Cell cycle-dependent chromatin shuttling of HBO1-JADE1 histone acetyl transferase (HAT) complex. Siriwardana NS, et al. Cell Cycle, 2014. PMID 24739512, Free PMC Article
    3. The von Hippel-Lindau tumor suppressor stabilizes novel plant homeodomain protein Jade-1. Zhou MI, et al. J Biol Chem, 2002 Oct 18. PMID 12169691
    4. Polycystin-1 regulates the stability and ubiquitination of transcription factor Jade-1. Foy RL, et al. Hum Mol Genet, 2012 Dec 15. PMID 23001567, Free PMC Article
    5. Noncanonical imprinting sustains embryonic development and restrains placental overgrowth. Matoba S, et al. Genes Dev, 2022 Apr 1. PMID 35483741, Free PMC Article

    See all (38) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. JADE1 is dispensable for the brain development in mice.
      Title: JADE1 is dispensable for the brain development in mice.
    2. Interactome analyses revealed that the Jade-1S mutant unable to be phosphorylated by CK1alpha has an increased binding affinity to proteins involved in chromatin remodelling, histone deacetylation, transcriptional repression, and ribosome biogenesis.
      Title: Jade-1S phosphorylation induced by CK1α contributes to cell cycle progression.
    3. lncRNA-JADE is a key functional link that connects the DDR to histone H4 acetylation, and that dysregulation of lncRNA-JADE may contribute to breast tumorigenesis.
      Title: A novel non-coding RNA lncRNA-JADE connects DNA damage signalling to histone H4 acetylation.
    4. exhibits a regulated expression during embryogenesis and localizes to the nucleus and/or cytoplasm of different cell types
      Title: Identification of Jade1, a gene encoding a PHD zinc finger protein, in a gene trap mutagenesis screen for genes involved in anteroposterior axis development.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    Pathways from PubChem

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    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
    contributes_to histone H3K14 acetyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to histone H4K12 acetyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to histone H4K5 acetyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to histone H4K8 acetyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within negative regulation of G1/S transition of mitotic cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of canonical Wnt signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell growth 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
    located_in cell projection IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in ciliary basal body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    protein Jade-1
    Names
    Jade1 PHD finger protein
    PHD finger protein 17
    jade family PHD finger protein 1

    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_001130184.1 → NP_001123656.1  protein Jade-1

      See identical proteins and their annotated locations for NP_001123656.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. All four variants encode the same protein.
      Source sequence(s)
      AV515494, BN000281, BY060282
      Consensus CDS
      CCDS17331.1
      UniProtKB/Swiss-Prot
      Q6IE84, Q6ZPI0, Q8C7S6, Q8CFM2, Q8R362
      Related
      ENSMUSP00000026865.9, ENSMUST00000026865.15
      Conserved Domains (2) summary
      COG5141
      Location:100 → 528
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cd15671
      Location:259 → 369
      ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins

    2. NM_001130185.1 → NP_001123657.1  protein Jade-1

      See identical proteins and their annotated locations for NP_001123657.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. All four variants encode the same protein.
      Source sequence(s)
      AV515494, BN000281, BY146568
      Consensus CDS
      CCDS17331.1
      UniProtKB/Swiss-Prot
      Q6IE84, Q6ZPI0, Q8C7S6, Q8CFM2, Q8R362
      Related
      ENSMUSP00000127113.2, ENSMUST00000170711.8
      Conserved Domains (2) summary
      COG5141
      Location:100 → 528
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cd15671
      Location:259 → 369
      ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins

    3. NM_001130186.1 → NP_001123658.1  protein Jade-1

      See identical proteins and their annotated locations for NP_001123658.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. All four variants encode the same protein.
      Source sequence(s)
      AV515494, BN000281, CD563805
      Consensus CDS
      CCDS17331.1
      UniProtKB/Swiss-Prot
      Q6IE84, Q6ZPI0, Q8C7S6, Q8CFM2, Q8R362
      Related
      ENSMUSP00000131441.2, ENSMUST00000168086.7
      Conserved Domains (2) summary
      COG5141
      Location:100 → 528
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cd15671
      Location:259 → 369
      ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins

    4. NM_172303.4 → NP_758507.3  protein Jade-1

      See identical proteins and their annotated locations for NP_758507.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. All four variants encode the same protein.
      Source sequence(s)
      AV515494, BN000281, CJ060622
      Consensus CDS
      CCDS17331.1
      UniProtKB/Swiss-Prot
      Q6IE84, Q6ZPI0, Q8C7S6, Q8CFM2, Q8R362
      Related
      ENSMUSP00000128152.2, ENSMUST00000163764.8
      Conserved Domains (2) summary
      COG5141
      Location:100 → 528
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cd15671
      Location:259 → 369
      ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins

    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_000069.7 Reference GRCm39 C57BL/6J

      Range
      41510169..41571299
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030252630.1 → XP_030108490.1  protein Jade-1 isoform X1

      UniProtKB/Swiss-Prot
      Q6IE84, Q6ZPI0, Q8C7S6, Q8CFM2, Q8R362
      Conserved Domains (2) summary
      COG5141
      Location:100 → 528
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cd15671
      Location:259 → 369
      ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins

    2. XM_030252631.2 → XP_030108491.1  protein Jade-1 isoform X1

      UniProtKB/Swiss-Prot
      Q6IE84, Q6ZPI0, Q8C7S6, Q8CFM2, Q8R362
      Conserved Domains (2) summary
      COG5141
      Location:100 → 528
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cd15671
      Location:259 → 369
      ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins

    3. XM_006500784.4 → XP_006500847.1  protein Jade-1 isoform X2

      Conserved Domains (2) summary
      COG5141
      Location:115 → 543
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cd15671
      Location:274 → 384
      ePHD_JADE; Extended PHD finger found in protein Jade-1, Jade-2, Jade-3 and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6ZPI0.2 GenPept UniProtKB/Swiss-Prot:Q6ZPI0

    Gene LinkOut

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

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