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Aliases for ZC3H4 Gene

Aliases for ZC3H4 Gene

  • Zinc Finger CCCH-Type Containing 4 2 3 5
  • C19orf7 3 4
  • Zinc Finger CCCH Domain-Containing Protein 4 3
  • Chromosome 19 Open Reading Frame 7 2
  • KIAA1064 4

External Ids for ZC3H4 Gene

Previous HGNC Symbols for ZC3H4 Gene

  • C19orf7

Previous GeneCards Identifiers for ZC3H4 Gene

  • GC19M052260
  • GC19M047569
  • GC19M043991

Summaries for ZC3H4 Gene

Entrez Gene Summary for ZC3H4 Gene

  • This gene encodes a member of a family of CCCH (C-x8-C-x5-C-x3-H type) zinc finger domain-containing proteins. These zinc finger domains, which coordinate zinc finger binding and are characterized by three cysteine residues and one histidine residue, are nucleic acid-binding. Other family members are known to function in post-transcriptional regulation. [provided by RefSeq, Aug 2011]

GeneCards Summary for ZC3H4 Gene

ZC3H4 (Zinc Finger CCCH-Type Containing 4) is a Protein Coding gene. GO annotations related to this gene include poly(A) RNA binding. An important paralog of this gene is ZC3H6.

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZC3H4 Gene

Genomics for ZC3H4 Gene

Regulatory Elements for ZC3H4 Gene

Enhancers for ZC3H4 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
GH19G047225 1.5 ENCODE dbSUPER 125.1 -115.6 -115630 8.2 MLX AGO1 ZFP64 FEZF1 DMAP1 YY1 ZNF416 ZNF143 ZNF548 ZNF263 ZC3H4 BICRA ENSG00000268810 NOP53-AS1 CCDC9 PPP5D1 PRKD2 SLC1A5 ENSG00000268746 SNORD23
GH19G047242 2.1 FANTOM5 Ensembl ENCODE dbSUPER 75.2 -130.0 -130039 2.5 CREB3L1 AGO1 ZFP64 DMAP1 YBX1 YY1 ZNF143 ZNF548 ZNF263 SP3 ZC3H4 BICRA ENSG00000268810 NOP53-AS1 CCDC9 SLC1A5 ENSG00000268746 EHD2 INAFM1 PRKD2
GH19G047239 2 FANTOM5 Ensembl ENCODE dbSUPER 72.6 -126.8 -126808 3.1 CREB3L1 AGO1 ZFP64 DMAP1 YBX1 YY1 SLC30A9 ZNF143 ZNF416 ZNF548 ZC3H4 BICRA NOP53-AS1 ENSG00000268810 PPP5D1 C19orf68 CCDC9 SLC8A2 SLC1A5 ENSG00000268746
GH19G046727 1.8 FANTOM5 Ensembl ENCODE 60.3 +382.4 382394 6.9 MLX DMAP1 FEZF1 SLC30A9 ZNF143 ZNF548 SP3 TBX21 SSRP1 GLIS1 ZC3H4 ENSG00000268810 CCDC61 BICRA PRKD2 STRN4 ENSG00000259605 IRF2BP1 ENSG00000268746 MIR320E
GH19G047309 1.8 FANTOM5 Ensembl ENCODE 57 -199.0 -198987 7.5 HDGF FOXA2 PKNOX1 MLX CREB3L1 ARNT ARID4B SIN3A DMAP1 YBX1 DHX34 ZC3H4 C5AR1 C5AR2 CCDC9 NAPA BICRA NOP53-AS1 BBC3
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ZC3H4 on UCSC Golden Path with GeneCards custom track

Promoters for ZC3H4 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000110500 1552 4001 MLX CREB3L1 AGO1 FEZF1 DMAP1 YBX1 YY1 ZNF263 SP3 TBX21

Genomic Location for ZC3H4 Gene

Chromosome:
19
Start:
47,064,187 bp from pter
End:
47,113,752 bp from pter
Size:
49,566 bases
Orientation:
Minus strand

Genomic View for ZC3H4 Gene

Genes around ZC3H4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZC3H4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZC3H4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZC3H4 Gene

Proteins for ZC3H4 Gene

  • Protein details for ZC3H4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UPT8-ZC3H4_HUMAN
    Recommended name:
    Zinc finger CCCH domain-containing protein 4
    Protein Accession:
    Q9UPT8
    Secondary Accessions:
    • Q9Y420

    Protein attributes for ZC3H4 Gene

    Size:
    1303 amino acids
    Molecular mass:
    140257 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA83016.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for ZC3H4 Gene

neXtProt entry for ZC3H4 Gene

Post-translational modifications for ZC3H4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for ZC3H4 Gene

Domains & Families for ZC3H4 Gene

Gene Families for ZC3H4 Gene

Protein Domains for ZC3H4 Gene

Suggested Antigen Peptide Sequences for ZC3H4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ZC3H4: view

No data available for UniProtKB/Swiss-Prot for ZC3H4 Gene

Function for ZC3H4 Gene

Gene Ontology (GO) - Molecular Function for ZC3H4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA 22658674
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZC3H4: view
genes like me logo Genes that share phenotypes with ZC3H4: view

Animal Model Products

CRISPR Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZC3H4 Gene

Localization for ZC3H4 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 ZC3H4 gene
Compartment Confidence
nucleus 4
cytosol 3
cytoskeleton 2

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for ZC3H4 Gene

Pathways & Interactions for ZC3H4 Gene

SuperPathways for ZC3H4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZC3H4 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for ZC3H4 Gene

Transcripts for ZC3H4 Gene

Unigene Clusters for ZC3H4 Gene

Zinc finger CCCH-type containing 4:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for ZC3H4 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b · 13c
SP1: - - - - - - - -
SP2:
SP3:
SP4: -
SP5:

Relevant External Links for ZC3H4 Gene

GeneLoc Exon Structure for
ZC3H4
ECgene alternative splicing isoforms for
ZC3H4

Expression for ZC3H4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZC3H4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for ZC3H4 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (13.1), Lung (8.6), and CD8 Tcells (7.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for ZC3H4 Gene



Protein tissue co-expression partners for ZC3H4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ZC3H4 Gene:

ZC3H4

SOURCE GeneReport for Unigene cluster for ZC3H4 Gene:

Hs.104661

Evidence on tissue expression from TISSUES for ZC3H4 Gene

  • Lung(5)
  • Liver(4.2)
  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with ZC3H4: 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 ZC3H4 Gene

Orthologs for ZC3H4 Gene

This gene was present in the common ancestor of animals.

Orthologs for ZC3H4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ZC3H4 34 35
  • 99.15 (n)
cow
(Bos Taurus)
Mammalia ZC3H4 34 35
  • 88.52 (n)
dog
(Canis familiaris)
Mammalia ZC3H4 34 35
  • 88.48 (n)
mouse
(Mus musculus)
Mammalia Zc3h4 34 16 35
  • 85.1 (n)
rat
(Rattus norvegicus)
Mammalia Zc3h4 34
  • 83.33 (n)
oppossum
(Monodelphis domestica)
Mammalia ZC3H4 35
  • 81 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia ZC3H4 35
  • 60 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia ZC3H4 35
  • 64 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100145628 34
  • 63.81 (n)
Str.7732 34
zebrafish
(Danio rerio)
Actinopterygii zc3h4 35
  • 50 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta su(s) 35
  • 12 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea T26A8.4 35
  • 20 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.4406 35
  • 20 (a)
OneToMany
Species where no ortholog for ZC3H4 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)
  • chicken (Gallus gallus)
  • 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)
  • wheat (Triticum aestivum)

Evolution for ZC3H4 Gene

ENSEMBL:
Gene Tree for ZC3H4 (if available)
TreeFam:
Gene Tree for ZC3H4 (if available)

Paralogs for ZC3H4 Gene

Paralogs for ZC3H4 Gene

(2) SIMAP similar genes for ZC3H4 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with ZC3H4: view

Variants for ZC3H4 Gene

Sequence variations from dbSNP and Humsavar for ZC3H4 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs1000018053 -- 47,115,330(+) GCTAC(C/T)TGGGA upstream-variant-2KB
rs1000034897 -- 47,064,809(+) GTAGG(A/C)CACCC utr-variant-3-prime
rs1000102632 -- 47,073,942(+) CTCAA(C/T)TCCTG intron-variant
rs1000106520 -- 47,065,055(+) CAGGA(C/T)AGCAG utr-variant-3-prime
rs1000147515 -- 47,111,123(+) TCTTC(C/T)CCTCT intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for ZC3H4 Gene

Variant ID Type Subtype PubMed ID
esv3644544 CNV loss 21293372
nsv1067417 CNV gain 25217958
nsv2512 CNV insertion 18451855
nsv472258 CNV novel sequence insertion 20440878
nsv833851 CNV loss 17160897

Variation tolerance for ZC3H4 Gene

Residual Variation Intolerance Score: 11% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.08; 68.95% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ZC3H4 Gene

Human Gene Mutation Database (HGMD)
ZC3H4
SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZC3H4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZC3H4 Gene

Disorders for ZC3H4 Gene

Relevant External Links for ZC3H4

Genetic Association Database (GAD)
ZC3H4
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ZC3H4

No disorders were found for ZC3H4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZC3H4 Gene

Publications for ZC3H4 Gene

  1. Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index. (PMID: 20935630) Speliotes E.K. … Loos R.J. (Nat. Genet. 2010) 3 46 64
  2. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PMID: 16964243) Beausoleil S.A. … Gygi S.P. (Nat. Biotechnol. 2006) 3 4 64
  3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen J.V. … Mann M. (Cell 2006) 3 4 64
  4. Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PMID: 12168954) Nakajima D. … Nagase T. (DNA Res. 2002) 3 4 64
  5. Prediction of the coding sequences of unidentified human genes. XIV. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10470851) Kikuno R. … Ohara O. (DNA Res. 1999) 3 4 64

Products for ZC3H4 Gene

Sources for ZC3H4 Gene

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