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

ZFC3H1 Gene

protein-coding   GIFtS: 45
GCID: GC12M072003

zinc finger, C3H1-type containing

(Previous names: proline/serine-rich coiled-coil 2, coiled-coil domain containing...)
(Previous symbols: PSRC2, CCDC131)
  Search for ZFC3H1
in our new
 Human Malady Compendium 
Biological research products
for ZFC3H1
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Zinc Finger, C3H1-Type Containing1 2     KIAA05461 3
CCDC1311 2 3     Coiled-Coil Domain-Containing Protein 1312 3
PSRC21 2 3     Proline/Serine-Rich Coiled-Coil Protein 22 3
Coiled-Coil Domain Containing 1311 2     MGC234011
Proline/Serine-Rich Coiled-Coil 21 2     Zinc Finger C3H1 Domain-Containing Protein2

External Ids:    HGNC: 283281   Entrez Gene: 1964412   Ensembl: ENSG000001338587   UniProtKB: O602933   

Export aliases for ZFC3H1 gene to outside databases

Previous GC identifers: GC12M070292 GC12M069052


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

  --

(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000012.11  NC_018923.1  NT_029419.12  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ZFC3H1 gene promoter:
         Nkx3-1   AML1a   Nkx3-1 v1   Nkx3-1 v2   POU2F1   POU2F1a   FOXO1a   Pax-4a   FOXO1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZFC3H1 promoter sequence
   Search SABiosciences Chromatin IP Primers for ZFC3H1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ZFC3H1


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

Entrez Gene cytogenetic band: 12q21.1   Ensembl cytogenetic band:  12q21.1   HGNC cytogenetic band: 12q21.1

ZFC3H1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZFC3H1 gene location

GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12M072003:  view genomic region     (about GC identifiers)

Start:
72,003,252 bp from pter      End:
72,061,505 bp from pter
Size:
58,254 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: ZC3H1_HUMAN, O60293 (See protein sequence)
Recommended Name: Zinc finger C3H1 domain-containing protein  
Size: 1989 amino acids; 226356 Da
Sequence caution: Sequence=BAA25472.2; Type=Erroneous initiation; Sequence=BAC86028.1; Type=Erroneous initiation;
Secondary accessions: Q6GMU1 Q6P2S9 Q6ZV36 Q96BE7
Alternative splicing: 3 isoforms:  O60293-1   O60293-2   O60293-4   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for ZFC3H1: NX_O60293

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_O60293

  • ZFC3H1 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_659419.3  
    ENSEMBL proteins: 
     ENSP00000368017   ENSP00000446995   ENSP00000450044   ENSP00000447976  

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    Uscn Proteins for ZFC3H1

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular IEA--


    ZFC3H1 for ontologies           About GeneDecksing



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    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    ZFC3H1 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR003107 HAT
     IPR019607 Putative_zinc-finger_domain
     IPR013026 TPR-contain_dom

    Graphical View of Domain Structure for InterPro Entry O60293

    ProtoNet protein and cluster: O60293

    1 Blocks protein family: IPB003107 RNA-processing protein

    UniProtKB/Swiss-Prot: ZC3H1_HUMAN, O60293
    Similarity: Contains 1 C3H1-type zinc finger
    Similarity: Contains 6 HAT repeats
    Similarity: Contains 5 TPR repeats


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    miRNA
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    Inhib. RNA
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    Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI--
    GO:0046872metal ion binding IEA--


    ZFC3H1 for ontologies           About GeneDecksing


    2 GenomeRNAi human phenotypes for ZFC3H1:
     Synthetic lethal with Ras  Upregulation of NF-kappaB path 


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for ZFC3H1

    STRING Interaction Network Preview (showing 4 interactants - click image to see more details)

    5 Interacting proteins for ZFC3H1 (O602931, 2, 3 ENSP000003680174) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CCDC85BQ158342, 3, ENSP000003116954MINT-68301 I2D: score=4 STRING: ENSP00000311695
    NINLQ9Y2I62, 3, ENSP000002788864MINT-66893 I2D: score=4 STRING: ENSP00000278886
    MYBP102421, 3EBI-2874127,EBI-298355 I2D: score=1 
    SUMO1P631653, ENSP000003760764I2D: score=1 STRING: ENSP00000376076
    UBCENSP000003448184STRING: ENSP00000344818
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006396RNA processing IEA--


    ZFC3H1 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, 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 ZFC3H1
    Search CenterWatch for drugs/clinical trials and news about ZFC3H1 / ZC3H1 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    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, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for ZFC3H1 gene: 
    NM_144982.4  

    Unigene Cluster for ZFC3H1:

    Zinc finger, C3H1-type containing
    Hs.527874  [show with all ESTs]
    Unigene Representative Sequence: NM_144982
    12 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000378743(uc001swo.2) ENST00000552994 ENST00000550963 ENST00000547398
    ENST00000551487 ENST00000546475 ENST00000546771 ENST00000546606 ENST00000550712
    ENST00000548100(uc001swp.3) ENST00000552037(uc010sts.2) ENST00000549407


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    Additional cDNA sequence: 

    AK125035.1 BC015679.2 BC064336.1 BC073843.1 BX647709.1 

    10 DOTS entries:

    DT.100729720  DT.91640914  DT.442262  DT.91833909  DT.100754893  DT.121138658  DT.100754888  DT.95159609 
    DT.40119817  DT.91706618 

    24/145 AceView cDNA sequences (see all 145):

    BM674787 AA868849 AK125035 BM828166 AW192423 CB321747 AI801082 AI082803 
    NM_144982 AI066760 AA322549 CK819199 AI082040 AL703534 AW073384 AI985513 
    AB011118 BM717427 BI518497 BX956573 BX647709 AW086461 AW515850 BC073843 

    GeneLoc Exon Structure

    5/12 Alternative Splicing Database (ASD) splice patterns (SP) for ZFC3H1 (see all 12)    About this scheme

    ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b · 11c ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16a · 16b ^ 17a · 17b · 17c ^
    SP1:                                                                                                                                -                           
    SP2:                                                                                                                                -                           
    SP3:                                                                                                                                                            
    SP4:                                                                                                                                                            
    SP5:              -     -           -     -                                                                                                                     

    ExUns: 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24 ^ 25 ^ 26 ^ 27 ^ 28 ^ 29 ^ 30a · 30b ^ 31a · 31b ^ 32 ^ 33a · 33b · 33c ^ 34a · 34b · 34c ^ 35a · 35b ^ 36 ^
    SP1:                                                                                      -                 -                       -     -     -               
    SP2:                                                                                                                                                            
    SP3:                                                                                                                                                            
    SP4:                                                                                      -                 -                                                   
    SP5:                                                                                                                                                            

    ExUns: 37a · 37b
    SP1:            
    SP2:            
    SP3:            
    SP4:            
    SP5:            


    ECgene alternative splicing isoforms for ZFC3H1

    (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

    ZFC3H1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GCCACAAGTC

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    See ZFC3H1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for ZFC3H1

    SOURCE GeneReport for Unigene cluster: Hs.527874
        SABiosciences Custom PCR Arrays for ZFC3H1
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZFC3H1

    (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 chordates.

    Orthologs for ZFC3H1 gene from 5/15 species (see all 15)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zfc3h11 , 5 zinc finger, C3H1-type containing1, 5 89.01(n)1
    91.93(a)1
      10 (63.51 cM)5
    2163451  NM_001033261.21  NP_001028433.21 
     1153849595 
    chicken
    (Gallus gallus)
    Aves ZFC3H11 zinc finger, C3H1-type containing 75.27(n)
    74.64(a)
      417855  XM_416097.3  XP_416097.3 
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    --
    79(a)
    67(a)
    many → 1
    many → 1
    5(38408680-38420591)
    5(38392616-38408676)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.156682 Xenopus laevis transcribed sequence with weak similarity more 81.02(n)    CD254486.1 
    zebrafish
    (Danio rerio)
    Actinopterygii CABZ01113064.16
    --
    28(a)
    1 ↔ 1
    25(38491810-38495066)


    ENSEMBL Gene Tree for ZFC3H1 (if available)
    TreeFam Gene Tree for ZFC3H1 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/904 NCBI SNPs in ZFC3H1 are shown (see all 904    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 12 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1869561431,2
    --72002924(+) GGTTGA/CTGCTC 1 -- ds50010--------
    rs1929841201,2
    --72002930(+) TGCTCC/TGCCTC 1 -- ds50010--------
    rs171099521,2
    C,F,H,--72003129(+) AACTAC/TGGTTG 1 -- ds500114Minor allele frequency- T:0.03NA NS EA CSA WA 1344
    rs1852753201,2
    --72003130(+) ACTACA/GGTTGG 1 -- ds50010--------
    rs1401564301,2
    C,--72003225(+) ATCCA-/TCTTCTCA 1 -- ds50010--------
    rs1887987111,2
    --72003266(+) TTTTAA/GTGGGA 1 -- ds50010--------
    rs1461367251,2
    --72003321(+) TATCCA/GTATCT 1 -- ds50010--------
    rs118374861,2
    C,F,A,H,--72003423(+) AATTTC/TAATAC 1 -- ut313Minor allele frequency- T:0.08NS NA WA 228
    rs1932163441,2
    --72003530(+) GCACAC/TAATAT 1 -- ut310--------
    rs1390091051,2
    --72003715(+) GACTGC/TTATAG 1 -- ut310--------

    HapMap Linkage Disequilibrium report for ZFC3H1 (72003252 - 72061505 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for ZFC3H1: --

    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, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
      --

    (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 ZFC3H1 gene, integrated from 9 sources (see all 17):
    (articles sorted by number of sources associating them with ZFC3H1)
        Utopia: connect your pdf to the dynamic
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    1. Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PubMed id 9628581)1, 2, 3 Nagase T....Ohara O. (1998)
    2. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    3. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    4. 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)
    5. Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
    6. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
    7. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    8. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
    9. Proteomics analysis of nucleolar SUMO-1 target protei ns upon proteasome inhibition. (PubMed id 19596686)1 Matafora V....Bachi A. (2009)
    10. Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (2009)

    (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: 196441 HGNC: 28328 AceView: MGC23401 Ensembl:ENSG00000133858 euGenes: HUgn196441
    ECgene: ZFC3H1 H-InvDB: ZFC3H1

    (According to HUGE)
    About This Section
    HUGE: KIAA0546

    (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 ZFC3H1 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 ZFC3H1 gene:
    Search GeneIP for patents involving ZFC3H1

    GeneCards and IP:
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