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Aliases for JMJD4 Gene

Aliases for JMJD4 Gene

  • Jumonji Domain Containing 4 2 3 5
  • 2-Oxoglutarate- And Fe(II)-Dependent Oxygenase 2
  • Jumonji Domain-Containing Protein 4 4
  • C4 Lysyl Hydroxylase 2

External Ids for JMJD4 Gene

Previous GeneCards Identifiers for JMJD4 Gene

  • GC01M224226
  • GC01M225985
  • GC01M227918
  • GC01M198436

Summaries for JMJD4 Gene

GeneCards Summary for JMJD4 Gene

JMJD4 (Jumonji Domain Containing 4) is a Protein Coding gene. An important paralog of this gene is JMJD6.

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for JMJD4 Gene

Genomics for JMJD4 Gene

Regulatory Elements for JMJD4 Gene

Enhancers for JMJD4 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01G227792 1.7 FANTOM5 Ensembl ENCODE dbSUPER 14.6 -58.5 -58548 2.6 CBX3 INSM2 KLF17 FEZF1 RAD21 GLIS2 ZNF366 EGR2 ZNF263 ZNF398 JMJD4 WNT9A C1orf35 SNAP47 COQ8A ZNF678 CDC42BPA LOC105373289 PRSS38
GH01G228646 1.8 FANTOM5 Ensembl ENCODE 10.3 -912.5 -912539 2.8 HDGF ARID4B SIN3A YBX1 FEZF1 DMAP1 ZNF2 ZNF302 ZNF416 ZNF207 NUP133 CICP26 C1orf35 ENSG00000269890 HMGN2P19 HIST3H3 TAF5L ABCB10 RHOU JMJD4
GH01G227765 1.6 FANTOM5 Ensembl ENCODE 10.6 -30.6 -30571 1.9 HDGF PKNOX1 ZNF133 GLI4 FEZF1 ZNF48 ZNF2 GLIS2 FOS ZNF263 C1orf35 JMJD4 ENSG00000231563 SNAP47 IBA57 SNAP47-AS1 LOC105373289
GH01G227431 1.6 Ensembl ENCODE dbSUPER 10.4 +303.5 303452 1.5 PKNOX1 FOXA2 CREB3L1 ARNT ZNF2 ZNF766 ZNF416 FOS KLF13 MCM3 C1orf35 CICP26 ENSG00000269890 CDC42BPA JMJD4 LINC01641 BTF3P9 RPS18P3
GH01G227733 1.4 ENCODE dbSUPER 11.1 +0.4 407 2.8 MLX CREB3L1 AGO1 ZFP64 FEZF1 DMAP1 SLC30A9 ZNF416 ZNF143 ZNF548 CICP26 C1orf35 ENSG00000269890 SNAP47 JMJD4 ENSG00000231563 PIR45879
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around JMJD4 on UCSC Golden Path with GeneCards custom track

Promoters for JMJD4 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000021218 299 2001 MLX CREB3L1 AGO1 ZFP64 FEZF1 DMAP1 SLC30A9 ZNF416 ZNF143 ZNF548

Genomic Location for JMJD4 Gene

Chromosome:
1
Start:
227,730,425 bp from pter
End:
227,735,499 bp from pter
Size:
5,075 bases
Orientation:
Minus strand

Genomic View for JMJD4 Gene

Genes around JMJD4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
JMJD4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for JMJD4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for JMJD4 Gene

Proteins for JMJD4 Gene

  • Protein details for JMJD4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H9V9-JMJD4_HUMAN
    Recommended name:
    JmjC domain-containing protein 4
    Protein Accession:
    Q9H9V9
    Secondary Accessions:
    • Q5TBZ1
    • Q5TBZ6
    • Q9H970

    Protein attributes for JMJD4 Gene

    Size:
    463 amino acids
    Molecular mass:
    52493 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB14366.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=CAI23067.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for JMJD4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for JMJD4 Gene

Post-translational modifications for JMJD4 Gene

  • Ubiquitination at posLast=153153 and isoforms=2447
  • Modification sites at PhosphoSitePlus

Other Protein References for JMJD4 Gene

No data available for DME Specific Peptides for JMJD4 Gene

Domains & Families for JMJD4 Gene

Protein Domains for JMJD4 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for JMJD4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with JMJD4: view

No data available for Gene Families and UniProtKB/Swiss-Prot for JMJD4 Gene

Function for JMJD4 Gene

Gene Ontology (GO) - Molecular Function for JMJD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 24360279
genes like me logo Genes that share ontologies with JMJD4: view
genes like me logo Genes that share phenotypes with JMJD4: view

Animal Models for JMJD4 Gene

MGI Knock Outs for JMJD4:

Animal Model Products

Inhibitory RNA Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for JMJD4 Gene

Localization for JMJD4 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 JMJD4 gene
Compartment Confidence
plasma membrane 2
mitochondrion 2
extracellular 1
peroxisome 1
cytosol 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for JMJD4 Gene

Pathways & Interactions for JMJD4 Gene

SuperPathways for JMJD4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for JMJD4 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for JMJD4 Gene

Drugs & Compounds for JMJD4 Gene

No Compound Related Data Available

Transcripts for JMJD4 Gene

Unigene Clusters for JMJD4 Gene

Jumonji domain containing 4:
Representative Sequences:

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for JMJD4 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b · 5c
SP1: -
SP2: - -
SP3:
SP4:

Relevant External Links for JMJD4 Gene

GeneLoc Exon Structure for
JMJD4
ECgene alternative splicing isoforms for
JMJD4

Expression for JMJD4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for JMJD4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for JMJD4 Gene

This gene is overexpressed in Testis (48.8) and CD8 Tcells (20.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for JMJD4 Gene



Protein tissue co-expression partners for JMJD4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of JMJD4 Gene:

JMJD4

SOURCE GeneReport for Unigene cluster for JMJD4 Gene:

Hs.555974

Evidence on tissue expression from TISSUES for JMJD4 Gene

  • Nervous system(4.4)
genes like me logo Genes that share expression patterns with JMJD4: 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 JMJD4 Gene

Orthologs for JMJD4 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for JMJD4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia JMJD4 34 35
  • 99.28 (n)
cow
(Bos Taurus)
Mammalia JMJD4 34 35
  • 79.33 (n)
rat
(Rattus norvegicus)
Mammalia Jmjd4 34
  • 79.01 (n)
dog
(Canis familiaris)
Mammalia JMJD4 34 35
  • 78.65 (n)
mouse
(Mus musculus)
Mammalia Jmjd4 34 16 35
  • 78.21 (n)
oppossum
(Monodelphis domestica)
Mammalia JMJD4 35
  • 58 (a)
OneToOne
chicken
(Gallus gallus)
Aves JMJD4 34 35
  • 64.81 (n)
lizard
(Anolis carolinensis)
Reptilia JMJD4 35
  • 58 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia jmjd4 34
  • 62 (n)
zebrafish
(Danio rerio)
Actinopterygii jmjd4 34 35
  • 61.1 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008415 34
  • 53.66 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG7200 34 35
  • 50.38 (n)
worm
(Caenorhabditis elegans)
Secernentea jmjd-4 35
  • 30 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G63080 34
  • 46.49 (n)
rice
(Oryza sativa)
Liliopsida Os01g0546900 34
  • 48.14 (n)
Species where no ortholog for JMJD4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for JMJD4 Gene

ENSEMBL:
Gene Tree for JMJD4 (if available)
TreeFam:
Gene Tree for JMJD4 (if available)

Paralogs for JMJD4 Gene

Paralogs for JMJD4 Gene

Pseudogenes.org Pseudogenes for JMJD4 Gene

genes like me logo Genes that share paralogs with JMJD4: view

Variants for JMJD4 Gene

Sequence variations from dbSNP and Humsavar for JMJD4 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000272274 -- 227,736,405(+) TACCC(A/C)AAAAG intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs1001333782 -- 227,734,184(+) CCAGA(C/T)GCTGC intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs1001557592 -- 227,733,697(+) AAGAG(C/T)GCCTG intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs1001585426 -- 227,733,461(+) CATCT(C/T)GCCCG intron-variant, upstream-variant-2KB, reference, missense, utr-variant-5-prime
rs1001922513 -- 227,732,308(+) TCACA(A/G)GGAGG intron-variant, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for JMJD4 Gene

Variant ID Type Subtype PubMed ID
esv32853 CNV gain 17666407
nsv1007479 CNV gain 25217958
nsv515496 CNV loss 19592680
nsv826908 CNV gain 20364138

Variation tolerance for JMJD4 Gene

Residual Variation Intolerance Score: 66.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.50; 77.63% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for JMJD4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
JMJD4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for JMJD4 Gene

Disorders for JMJD4 Gene

Relevant External Links for JMJD4

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
JMJD4

No disorders were found for JMJD4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for JMJD4 Gene

Publications for JMJD4 Gene

  1. Optimal translational termination requires C4 lysyl hydroxylation of eRF1. (PMID: 24486019) Feng T. … Coleman M.L. (Mol. Cell 2014) 2 3 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  4. A Y2H-seq approach defines the human protein methyltransferase interactome. (PMID: 23455924) Weimann M. … Stelzl U. (Nat. Methods 2013) 3 64
  5. A negative genetic interaction map in isogenic cancer cell lines reveals cancer cell vulnerabilities. (PMID: 24104479) Vizeacoumar F.J. … Moffat J. (Mol. Syst. Biol. 2013) 3 64

Products for JMJD4 Gene

Sources for JMJD4 Gene

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