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ZCCHC18 Gene

protein-coding   GIFtS: 34
GCID: GC0XP103356

Zinc Finger, CCHC Domain Containing 18

(Previous names: zinc finger, CCHC domain containing 12 pseudogene 1)
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): antisense

Quality score for the ORGUL clustered with this gene is 3

Aliases
Zinc Finger, CCHC Domain Containing 181 2
Zinc Finger, CCHC Domain Containing 12 Pseudogene 11 2
Paraneoplastic Ma Antigen Family Member 7B1 2
PNMA7B2
SIZN22
Putative Zinc Finger CCHC Domain-Containing Protein 182

External Ids:    HGNC: 324591   Entrez Gene: 6443532   Ensembl: ENSG000001667077   UniProtKB: P0CG323   
ORGUL members:         

Export aliases for ZCCHC18 gene to outside databases

Previous GC identifer: GC0XP103244


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for ZCCHC18 Gene:
ZCCHC18 (zinc finger, CCHC domain containing 18) is a protein-coding gene. Diseases associated with ZCCHC18 include cervicitis, and pancreatitis. GO annotations related to this gene include nucleic acid binding. An important paralog of this gene is PNMA6A.


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000023.11  NC_018934.2  NT_011651.18  
Regulatory elements:
   Regulatory transcription factor binding sites in the ZCCHC18 gene promoter:
         STAT5B   AP-1   XBP-1   STAT5A   NF-E2 p45   POU2F1   GATA-6   POU2F1a   Zic3   NF-E2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for ZCCHC18

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZCCHC18


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

Entrez Gene cytogenetic band: Xq22.2   Ensembl cytogenetic band:  Xq22.2   HGNC cytogenetic band: Xq22.2

ZCCHC18 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZCCHC18 gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XP103356:  view genomic region     (about GC identifiers)

Start:
103,356,822 bp from pter      End:
103,360,533 bp from pter
Size:
3,712 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: ZCC18_HUMAN, P0CG32 (See protein sequence)
Recommended Name: Putative zinc finger CCHC domain-containing protein 18  
Size: 403 amino acids; 45160 Da
Caution: Could be the product of a pseudogene

Explore the universe of human proteins at neXtProt for ZCCHC18: NX_P0CG32

REFSEQ proteins: NP_001137450.1  
ENSEMBL proteins: 
 ENSP00000473824  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
ZCCHC: Zinc fingers, CCHC domain containing
PNMA: Paraneoplastic Ma antigens

1 InterPro protein domain:
 IPR001878 Znf_CCHC

Graphical View of Domain Structure for InterPro Entry P0CG32

ProtoNet protein and cluster: P0CG32

UniProtKB/Swiss-Prot: ZCC18_HUMAN, P0CG32
Similarity: Belongs to the ZCCHC12 family
Similarity: Contains 1 CCHC-type zinc finger


ZCCHC18 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,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 2 molecular function terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003676nucleic acid binding IEA--
GO:0008270zinc ion binding IEA--
     
ZCCHC18 for ontologies           About GeneDecksing


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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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(SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for ZCCHC18
Interactions:

    Search GeneGlobe Interaction Network for ZCCHC18

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Tocris compounds for ZCCHC18 (ZCC18)



(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,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for ZCCHC18 gene: 
NM_001143978.2  

Unigene Cluster for ZCCHC18:

Zinc finger, CCHC domain containing 18
Hs.648338  [show with all ESTs]
Unigene Representative Sequence: NM_001143978
5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000423478 ENST00000537356(uc011msg.2 uc011msh.2) ENST00000422784
ENST00000605784 ENST00000603049
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Additional mRNA sequence: 

AF086548.1 NR_026694.1 

4 DOTS entries:

DT.306706  DT.97835270  DT.91845332  DT.121303046 

GeneLoc Exon Structure


(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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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ZCCHC18 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: TGTCTATTTC
ZCCHC18 Expression
About this image


ZCCHC18 expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 selected tissues (see all 7) fully expand
 
 Pancreas (Endocrine System)    fully expand to see all 4 entries
         Endocrine Progenitor Cells Ventral Pancreatic Bud
 
 Heart (Cardiovascular System)
         Atrioventricular Node Cells Atrioventricular Node
 
 Limb (Muscoskeletal System)
         Mesenchymal Condensate Cells Zeugopod
 
 Endothelium (Cardiovascular System)
         Endothelial Cells Blood Brain Barrier
 
 Bone (Muscoskeletal System)
         Mesenchymal Condensate Cells Zeugopod
ZCCHC18 Protein expression data from MOPED1, PaxDb2 and MaxQB3 --

SOURCE GeneReport for Unigene cluster: Hs.648338
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(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)
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This gene was present in the common ancestor of human and mouse.

Orthologs for ZCCHC18 gene from Selected species (see all 5)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Zcchc181 , 5 zinc finger, CCHC domain containing 181, 5 78.09(n)1
68.54(a)1
  X (59.10 cM)5
669951  NM_001035509.11  NP_001030586.11 
 1369931555 


ENSEMBL Gene Tree for ZCCHC18 (if available)
TreeFam Gene Tree for ZCCHC18 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for ZCCHC18 gene
PNMA6A2  PNMA52  PNMA12  PNMA6D2  PNMA22  PNMAL22  PNMA6C2  MOAP12  
PNMA32  ZCCHC122  PNMAL12  PNMA6B2  
3 SIMAP similar genes for ZCCHC18 using alignment to 1 protein entry:     ZCC18_HUMAN:
ZCCHC12    PNMA2    PNMA1

ZCCHC18 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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2 SNPs for ZCCHC18    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr X posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs102181831,2
C--92982767(+) GATGGA/GGGAGC 2 -- us2k13Minor allele frequency- G:0.00NA 4
rs2020964511,2
----92982760(+) GTCAC-/GGGA  
 TGGGGGA
GCAGA
2 -- us2k10--------

HapMap Linkage Disequilibrium report for ZCCHC18 (103356822 - 103360533 bp)

Structural Variations
     Database of Genomic Variants (DGV) 4 variations for ZCCHC18:    About this table    
Variant IDTypeSubtypePubMed ID
nsv519626CNV Gain19592680
nsv469772CNV Complex16826518
dgv2459e1CNV Complex17122850
nsv7453OTHER Inversion18451855

Site Specific Mutation Identification with 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.)
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3 diseases for ZCCHC18:    
About MalaCards
cervicitis    pancreatitis    endotheliitis


ZCCHC18 for disorders           About GeneDecksing


Export disorders for ZCCHC18 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)
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PubMed articles for ZCCHC18 gene integrated from 10 sources:
(articles sorted by number of sources associating them with ZCCHC18)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (Nature 2005)
  2. Identification of proteins that interact with murine cytomegalovirus early protein M112-113 in brain. (PubMed id 22340173)1 Wang H....Fang F. (Chin. Med. J. 2011)
  3. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
  4. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PubMed id 15146197)1 Brandenberger R.... Stanton L.W. (Nat. Biotechnol. 2004)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 644353 HGNC: 32459 Ensembl:ENSG00000166707 euGenes: HUgn644353 ECgene: ZCCHC18
H-InvDB: ZCCHC18

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for ZCCHC18 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for ZCCHC18 gene:
Search GeneIP for patents involving ZCCHC18

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



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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