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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

ZC3H4 Gene

protein-coding   GIFtS: 47
GCID: GC19M047569

Zinc Finger CCCH-Type Containing 4

(Previous name: chromosome 19 open reading frame 7)
(Previous symbol: C19orf7)
  Search for ZC3H4
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Zinc Finger CCCH-Type Containing 41 2
C19orf71 2 3
Chromosome 19 Open Reading Frame 71
Zinc Finger CCCH Domain-Containing Protein 42
KIAA10643

External Ids:    HGNC: 178081   Entrez Gene: 232112   Ensembl: ENSG000001307497   UniProtKB: Q9UPT83   

Export aliases for ZC3H4 gene to outside databases

Previous GC identifers: GC19M052260 GC19M043991


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

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 zinc ion binding and nucleic acid binding. An important paralog of this gene is ZC3H6.




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000019.9  NT_011109.16  NC_018930.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ZC3H4 gene promoter:
         Egr-3   C/EBPbeta   Sp1   Egr-1   CUTL1   Nkx2-5   GATA-1   Evi-1   Egr-2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for ZC3H4

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ZC3H4


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 19q13.32   Ensembl cytogenetic band:  19q13.32   HGNC cytogenetic band: 19q13.33

ZC3H4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZC3H4 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M047569:  view genomic region     (about GC identifiers)

Start:
47,567,444 bp from pter      End:
47,617,009 bp from pter
Size:
49,566 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: ZC3H4_HUMAN, Q9UPT8 (See protein sequence)
Recommended Name: Zinc finger CCCH domain-containing protein 4  
Size: 1303 amino acids; 140257 Da
Sequence caution: Sequence=BAA83016.2; Type=Erroneous initiation;
1 PDB 3D structure from and Proteopedia for ZC3H4:
2CQE (3D)    
Secondary accessions: Q9Y420

Explore the universe of human proteins at neXtProt for ZC3H4: NX_Q9UPT8

Explore proteomics data for ZC3H4 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9UPT8

  • ZC3H4 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    ZC3H4 Protein Expression
    REFSEQ proteins: NP_055983.1  
    ENSEMBL proteins: 
     ENSP00000253048   ENSP00000469684  

    Human Recombinant Protein Products for ZC3H4: 
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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    ZC3H: Zinc fingers, CCCH-type domain containing

    1 InterPro protein domain:
     IPR000571 Znf_CCCH

    Graphical View of Domain Structure for InterPro Entry Q9UPT8

    ProtoNet protein and cluster: Q9UPT8

    1 Blocks protein domain: IPB000571 Zn-finger

    UniProtKB/Swiss-Prot: ZC3H4_HUMAN, Q9UPT8
    Similarity: Contains 3 C3H1-type zinc fingers


    ZC3H4 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

         Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0008270zinc ion binding ----
    GO:0046872metal ion binding IEA--
         
    ZC3H4 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for ZC3H4:
     Increased gamma-H2AX phosphory 

         1 MGI mutant phenotype (inferred from 2 alleles(MGI details for Zc3h4):
     growth/size 

    ZC3H4 for phenotypes           About GeneDecksing

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for ZC3H4 
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for ZC3H4 
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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for ZC3H4

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    3 Interacting proteins for ZC3H4 (Q9UPT83 ENSP000002530484) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SUMO1P631653, ENSP000003760764I2D: score=1 STRING: ENSP00000376076
    GABARAPO951663I2D: score=1 
    PRKAA1Q131313I2D: score=1 
    About this table

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for ZC3H4

    Search CenterWatch for drugs/clinical trials and news about ZC3H4

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for ZC3H4 gene: 
    NM_015168.1  

    Unigene Cluster for ZC3H4:

    Zinc finger CCCH-type containing 4
    Hs.104661  [show with all ESTs]
    Unigene Representative Sequence: NM_015168
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000253048(uc002pga.4 uc002pgb.1) ENST00000601973 ENST00000594019
    ENST00000597069 ENST00000595341
    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat ZC3H4
    8/46 QIAGEN miScript miRNA Assays for microRNAs that regulate ZC3H4 (see all 46):
    hsa-miR-21* hsa-miR-376b hsa-miR-429 hsa-miR-300 hsa-miR-99b* hsa-miR-200a hsa-miR-219-5p hsa-miR-138-2*
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for ZC3H4
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat ZC3H4
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat ZC3H4

    Additional mRNA sequence: 

    AB028987.2 AK074282.1 AK125279.1 AL050155.1 X58238.1 

    7 DOTS entries:

    DT.111757  DT.111756  DT.97763762  DT.95301348  DT.97810776  DT.101968338  DT.121498614 

    24/66 AceView cDNA sequences (see all 66):

    AI760394 AI370240 AL050155 C02391 AA570468 AK125279 AW304020 AB028987 
    BU674533 AA781792 BE543060 AI762720 AA812040 AA340627 AI809738 AA456182 
    BM714232 CB136024 AW090036 AI690086 AW403108 BM676612 AI053619 BQ675264 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for ZC3H4    About this scheme

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


    ECgene alternative splicing isoforms for ZC3H4

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    ZC3H4 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: ACTATTTCAC
    ZC3H4 Expression
    About this image


    See ZC3H4 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for ZC3H4

    SOURCE GeneReport for Unigene cluster: Hs.104661
        SABiosciences Custom PCR Arrays for ZC3H4
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZC3H4

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for ZC3H4 gene from 6/14 species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zc3h41 , 5 zinc finger CCCH-type containing 41, 5 85.89(n)1
    92.33(a)1
      7 (9.03 cM)5
    3304741  NM_198631.21  NP_941033.21 
     164011965 
    lizard
    (Anolis carolinensis)
    Reptilia ZC3H46
    zinc finger CCCH-type containing 4
    67(a)
    1 ↔ 1
    LGf(1759212-1788419)
    African clawed frog
    (Xenopus laevis)
    Amphibia CD329910.12   -- 80.27(n)    CD329910.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC5578231 uncharacterized LOC557823 60.6(n)
    60.79(a)
      557823  XM_680968.5  XP_686060.4 
    fruit fly
    (Drosophila melanogaster)
    Insecta su(s)6
    suppressor of sable
    9(a)
    1 → many
    X(529920-537793)
    worm
    (Caenorhabditis elegans)
    Secernentea CELE_T26A8.41 Protein T26A8.4 44.27(n)
    34.73(a)
      177643  NM_069034.4  NP_501435.1 


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for ZC3H4 gene
    ZC3H62  ZC3H82  
    2 SIMAP similar genes for ZC3H4 using alignment to 2 protein entries:     ZC3H4_HUMAN (see all proteins):
    ZC3H8    LOC84524

    ZC3H4 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/1265 SNPs in ZC3H4 are shown (see all 1265)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs105319081,2
    C--44003779(+) GCGCG-/CACACAC 1 -- int10--------
    rs800104281,2
    --44003780(+) CGCGCG/ACACAC 1 -- int11Minor allele frequency- A:0.00CSA 1
    rs748355831,2
    --47579583(+) GCGCGC/TACACA 1 -- int10--------
    rs603404331,2
    C--47579602(+) CACAC-/ACTCACA 1 -- int11Minor allele frequency- AC:0.00NA 2
    rs766398661,2
    C,F--47580257(+) AAAAAT/AATTTT 1 -- int11Minor allele frequency- A:0.50WA 2
    rs1134069401,2
    C,F--47594772(+) GATGCG/AGTGAG 1 -- int11Minor allele frequency- A:0.50WA 2
    rs571955211,2
    C--47596075(+) ATAAA-/TAAA/ 
    TAAATAAA
    CAAAC
    1 -- int10--------
    rs1493398891,2
    C--47614900(+) AAAAA-/ATAGGC 1 -- int10--------
    rs1119542201,2
    C,F--47618538(+) AAAAAG/TACAAA 1 -- us2k11Minor allele frequency- T:0.50CSA 2
    rs1902766581,2
    C--47752884(+) ACCCAC/TCCTTC 1 -- int10--------

    HapMap Linkage Disequilibrium report for ZC3H4 (47567444 - 47617009 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for ZC3H4:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv2512CNV Insertion18451855
    dgv3962n71CNV Loss21882294
    nsv833851CNV Loss17160897

    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    ZC3H4 for disorders           About MalaCards

    ZC3H4 for disorders           About GeneDecksing

    Genetic Association Database (GAD): ZC3H4

    Export disorders for ZC3H4 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for ZC3H4 gene, integrated from 9 sources (see all 24):
    (articles sorted by number of sources associating them with ZC3H4)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index. (PubMed id 20935630)1, 4 Speliotes E.K....Loos R.J. (2010)
    2. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)1, 2 Beausoleil S.A.... Gygi S.P. (2006)
    3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
    4. Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PubMed id 12168954)1, 2 Nakajima D.... Nagase T. (2002)
    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. (PubMed id 10470851)1, 2 Kikuno R....Ohara O. (1999)
    6. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    7. Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population. (PubMed id 23251661)1 Comuzzie A.G....Butte N.F. (2012)
    8. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    9. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)
    10. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 23211 HGNC: 17808 AceView: C19orf7 Ensembl:ENSG00000130749 euGenes: HUgn23211
    ECgene: ZC3H4 H-InvDB: ZC3H4

    (According to HUGE)
    About This Section
    HUGE: KIAA1064

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for ZC3H4 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for ZC3H4 gene:
    Search GeneIP for patents involving ZC3H4

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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