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Aliases for JADE2 Gene

Aliases for JADE2 Gene

  • Jade Family PHD Finger 2 2 3 5
  • PHD Finger Protein 15 2 3 4
  • Jade Family PHD Finger Protein 2 3 4
  • PHF15 3 4
  • E3 Ubiquitin-Protein Ligase Jade-2 3
  • Protein Jade-2 3
  • EC 2.3.2.27 4
  • KIAA0239 4
  • JADE-2 3

External Ids for JADE2 Gene

Previous HGNC Symbols for JADE2 Gene

  • PHF15

Previous GeneCards Identifiers for JADE2 Gene

  • GC05P133861

Summaries for JADE2 Gene

GeneCards Summary for JADE2 Gene

JADE2 (Jade Family PHD Finger 2) is a Protein Coding gene. Among its related pathways are Chromatin organization. An important paralog of this gene is JADE1.

UniProtKB/Swiss-Prot for JADE2 Gene

  • Component of the HBO1 complex which has a histone H4-specific acetyltransferase activity, a reduced activity toward histone H3 and is responsible for the bulk of histone H4 acetylation in vivo (PubMed:16387653). Acts as a E3 ubiquitin-protein ligase mediating the ubiquitination and subsequent proteasomal degradation of target protein histone demethylase KDM1A (PubMed:25018020). Also acts as a ubiquitin ligase E3 toward itself. Positive regulator of neurogenesis (By similarity).

Additional gene information for JADE2 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for JADE2 Gene

Genomics for JADE2 Gene

GeneHancer (GH) Regulatory Elements for JADE2 Gene

Promoters and enhancers for JADE2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05I134521 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 550.8 +1.4 1362 7.3 HDGF PKNOX1 CLOCK FOXA2 MLX ARID4B SIN3A FEZF1 DMAP1 ZNF2 JADE2 RNU6-456P RPS10P11 CDKN2AIPNL ENSG00000248559 LINC01843 ENSG00000280420 GC05M134520
GH05I134369 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 21.4 -152.6 -152578 3.6 CLOCK MLX DMAP1 YY1 ZNF213 E2F8 ZNF143 ZNF548 SP3 NFYC UBE2B CDKL3 ENSG00000273345 DDX46 SKP1 JADE2 C5orf24 SEC24A ENSG00000248559 C5orf66
GH05I134630 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 20.7 +108.0 108038 2.5 ZFP64 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 SP3 NFYC MEF2D SAR1B DDX46 JADE2 C5orf24 C5orf66 TXNDC15 SEC24A SKP1 C5orf66-AS1 CAMLG
GH05I134410 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE 11 -109.4 -109371 8.5 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 NFYC ZNF610 RCOR2 NBN WT1 CDKN2AIPNL DDX46 RNU6-456P JADE2 CATSPER3 CDKL3 C5orf66 C5orf24 SKP1 RPS10P11
GH05I134873 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 10.3 +350.9 350859 3.2 ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B ZNF766 ZNF143 ZNF207 FOS TXNDC15 JADE2 C5orf24 DDX46 PIR56260
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around JADE2 on UCSC Golden Path with GeneCards custom track

Genomic Locations for JADE2 Gene

Genomic Locations for JADE2 Gene
chr5:134,524,162-134,583,230
(GRCh38/hg38)
Size:
59,069 bases
Orientation:
Plus strand
chr5:133,860,003-133,918,918
(GRCh37/hg19)

Genomic View for JADE2 Gene

Genes around JADE2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
JADE2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for JADE2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for JADE2 Gene

Proteins for JADE2 Gene

  • Protein details for JADE2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NQC1-JADE2_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase Jade-2
    Protein Accession:
    Q9NQC1
    Secondary Accessions:
    • D3DQA3
    • Q6IE80
    • Q8TEK0
    • Q92513
    • Q96GQ6

    Protein attributes for JADE2 Gene

    Size:
    790 amino acids
    Molecular mass:
    87466 Da
    Quaternary structure:
    • Component of the HBO1 complex composed at least of ING4 or ING5, MYST2/HBO1, MEAF6, and one of JADE1, JADE2 and JADE3 (PubMed:16387653). Interacts (via C-terminus) with KDM1A (via AOD/Tower domain) (PubMed:25018020).
    SequenceCaution:
    • Sequence=BAA13245.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=BAB84949.1; Type=Frameshift; Positions=11; Evidence={ECO:0000305}; Sequence=CAB94935.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for JADE2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for JADE2 Gene

Post-translational modifications for JADE2 Gene

No Post-translational modifications

No data available for DME Specific Peptides for JADE2 Gene

Domains & Families for JADE2 Gene

Gene Families for JADE2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Graphical View of Domain Structure for InterPro Entry

Q9NQC1

UniProtKB/Swiss-Prot:

JADE2_HUMAN :
  • The first PHD domain is essential for its E3 ubiquitin ligase activity.
  • Belongs to the JADE family.
Domain:
  • The first PHD domain is essential for its E3 ubiquitin ligase activity.
Family:
  • Belongs to the JADE family.
genes like me logo Genes that share domains with JADE2: view

Function for JADE2 Gene

Molecular function for JADE2 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.
UniProtKB/Swiss-Prot Function:
Component of the HBO1 complex which has a histone H4-specific acetyltransferase activity, a reduced activity toward histone H3 and is responsible for the bulk of histone H4 acetylation in vivo (PubMed:16387653). Acts as a E3 ubiquitin-protein ligase mediating the ubiquitination and subsequent proteasomal degradation of target protein histone demethylase KDM1A (PubMed:25018020). Also acts as a ubiquitin ligase E3 toward itself. Positive regulator of neurogenesis (By similarity).

Enzyme Numbers (IUBMB) for JADE2 Gene

Phenotypes From GWAS Catalog for JADE2 Gene

Gene Ontology (GO) - Molecular Function for JADE2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0016740 transferase activity IEA --
GO:0046872 metal ion binding IEA --
GO:0061630 ubiquitin protein ligase activity IEA --
genes like me logo Genes that share ontologies with JADE2: view
genes like me logo Genes that share phenotypes with JADE2: view

Animal Model Products

miRNA for JADE2 Gene

Inhibitory RNA Products

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for JADE2 Gene

Localization for JADE2 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for JADE2 gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for JADE2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000123 histone acetyltransferase complex IDA 16387653
GO:0005654 nucleoplasm IDA --
GO:0070062 extracellular exosome HDA,IDA 19056867
genes like me logo Genes that share ontologies with JADE2: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for JADE2 Gene

Pathways & Interactions for JADE2 Gene

genes like me logo Genes that share pathways with JADE2: view

Pathways by source for JADE2 Gene

UniProtKB/Swiss-Prot Q9NQC1-JADE2_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for JADE2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000209 protein polyubiquitination IEA --
GO:0016567 protein ubiquitination IEA --
GO:0043966 histone H3 acetylation IDA 16387653
GO:0043981 histone H4-K5 acetylation IDA 16387653
GO:0043982 histone H4-K8 acetylation IDA 16387653
genes like me logo Genes that share ontologies with JADE2: view

No data available for SIGNOR curated interactions for JADE2 Gene

Drugs & Compounds for JADE2 Gene

No Compound Related Data Available

Transcripts for JADE2 Gene

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for JADE2 Gene

ExUns: 1 ^ 2a · 2b · 2c · 2d ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b · 10c ^ 11a · 11b ^ 12a · 12b ^ 13a · 13b ^ 14a · 14b ^ 15a · 15b ^ 16a ·
SP1: - - - - - - -
SP2: - - - - - - -
SP3: - - - - - -
SP4: - - - - - -
SP5: - -
SP6: - - - - - - - -
SP7:
SP8: -
SP9: -
SP10: - -
SP11:
SP12:

ExUns: 16b ^ 17
SP1: -
SP2: -
SP3:
SP4: -
SP5:
SP6:
SP7:
SP8:
SP9: -
SP10:
SP11:
SP12:

Relevant External Links for JADE2 Gene

GeneLoc Exon Structure for
JADE2
ECgene alternative splicing isoforms for
JADE2

Expression for JADE2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for JADE2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for JADE2 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (27.5), CD8 Tcells (17.7), and Blymphocyte (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for JADE2 Gene



Protein tissue co-expression partners for JADE2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of JADE2 Gene:

JADE2

Evidence on tissue expression from TISSUES for JADE2 Gene

  • Spleen(4.3)
  • Bone marrow(4.1)
  • Liver(4.1)
  • Nervous system(3.8)
genes like me logo Genes that share expression patterns with JADE2: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for JADE2 Gene

Orthologs for JADE2 Gene

This gene was present in the common ancestor of animals.

Orthologs for JADE2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia JADE2 34
  • 100 (a)
OneToOne
PHF15 33
  • 99.41 (n)
cow
(Bos Taurus)
Mammalia PHF15 33
  • 91.67 (n)
JADE2 34
  • 90 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PHF15 33
  • 90.48 (n)
JADE2 34
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Jade2 33 16
  • 87.52 (n)
Phf15 34
  • 87 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Jade2 33
  • 87.01 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia JADE2 34
  • 85 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia JADE2 34
  • 70 (a)
OneToOne
chicken
(Gallus gallus)
Aves PHF15 33
  • 73.29 (n)
JADE2 34
  • 67 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia JADE2 34
  • 55 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii phf15 33
  • 71.76 (n)
JADE2 34
  • 55 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta rno 34
  • 9 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 43 (a)
OneToMany
Species where no ortholog for JADE2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for JADE2 Gene

ENSEMBL:
Gene Tree for JADE2 (if available)
TreeFam:
Gene Tree for JADE2 (if available)

Paralogs for JADE2 Gene

Paralogs for JADE2 Gene

(7) SIMAP similar genes for JADE2 Gene using alignment to 6 proteins:

genes like me logo Genes that share paralogs with JADE2: view

Variants for JADE2 Gene

Sequence variations from dbSNP and Humsavar for JADE2 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000021923 -- 134,540,696(+) T/A intron_variant
rs1000100822 -- 134,547,117(+) A/G intron_variant
rs1000102115 -- 134,546,716(+) C/T intron_variant
rs1000154283 -- 134,546,951(+) T/C intron_variant
rs1000179412 -- 134,553,454(+) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for JADE2 Gene

Variant ID Type Subtype PubMed ID
nsv1125851 CNV tandem duplication 24896259
nsv462457 CNV loss 19166990
nsv509087 CNV insertion 20534489
nsv520381 CNV gain+loss 19592680
nsv521720 CNV loss 19592680
nsv599733 CNV loss 21841781
nsv599734 CNV loss 21841781
nsv830491 CNV loss 17160897

Variation tolerance for JADE2 Gene

Residual Variation Intolerance Score: 39.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.94; 49.19% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for JADE2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
JADE2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for JADE2 Gene

Disorders for JADE2 Gene

Additional Disease Information for JADE2

No disorders were found for JADE2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for JADE2 Gene

Publications for JADE2 Gene

  1. ING tumor suppressor proteins are critical regulators of chromatin acetylation required for genome expression and perpetuation. (PMID: 16387653) Doyon Y … Côté J (Molecular cell 2006) 3 4 58
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  3. Characterization of long cDNA clones from human adult spleen. II. The complete sequences of 81 cDNA clones. (PMID: 12693554) Jikuya H … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 2003) 3 4 58
  4. Identification of Jade1, a gene encoding a PHD zinc finger protein, in a gene trap mutagenesis screen for genes involved in anteroposterior axis development. (PMID: 14612400) Tzouanacou E … Wilson V (Molecular and cellular biology 2003) 3 4 58
  5. Prediction of the coding sequences of unidentified human genes. VI. The coding sequences of 80 new genes (KIAA0201-KIAA0280) deduced by analysis of cDNA clones from cell line KG-1 and brain. (PMID: 9039502) Nagase T … Nomura N (DNA research : an international journal for rapid publication of reports on genes and genomes 1996) 3 4 58

Products for JADE2 Gene

Sources for JADE2 Gene

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