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ZCCHC16 Gene

protein-coding   GIFtS: 39
GCID: GC0XP111326

Zinc Finger, CCHC Domain Containing 16

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(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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Aliases
Zinc Finger, CCHC Domain Containing 161 2     Zinc Finger CCHC Domain-Containing Protein 162
Mammalian Retrotransposon-Derived Protein 42 3     MAR33
Mar42     MART43
Mart42     

External Ids:    HGNC: 252141   Entrez Gene: 3405952   Ensembl: ENSG000001878237   UniProtKB: Q6ZR623   

Export aliases for ZCCHC16 gene to outside databases

Previous GC identifers: GC0XP111133 GC0XP101307


(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 ZCCHC16 Gene:
ZCCHC16 (zinc finger, CCHC domain containing 16) is a protein-coding gene. GO annotations related to this gene include nucleic acid binding. An important paralog of this gene is PEG10.


(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 at NCBI GenBank:
NC_000023.10  NC_018934.2  NT_011651.18  
Regulatory elements:
   Regulatory transcription factor binding sites in the ZCCHC16 gene promoter:
         Sp1   RREB-1   NF-YA   HNF-3beta   NF-YB   CBF-A   CBF-B   CP1A   NF-Y   CBF(2)   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZCCHC16 promoter sequence
   Search Chromatin IP Primers for ZCCHC16

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZCCHC16


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

Entrez Gene cytogenetic band: Xq23   Ensembl cytogenetic band:  Xq23   HGNC cytogenetic band: Xq23

ZCCHC16 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZCCHC16 gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XP111326:  view genomic region     (about GC identifiers)

Start:
111,326,253 bp from pter      End:
111,700,473 bp from pter
Size:
374,221 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, 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: ZCH16_HUMAN, Q6ZR62 (See protein sequence)
Recommended Name: Zinc finger CCHC domain-containing protein 16  
Size: 310 amino acids; 34685 Da
Secondary accessions: B2RPG1

Explore the universe of human proteins at neXtProt for ZCCHC16: NX_Q6ZR62

Explore proteomics data for ZCCHC16 at MOPED


See ZCCHC16 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_001004308.2  
ENSEMBL proteins: 
 ENSP00000340590  

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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

1 InterPro protein domain:
 IPR001878 Znf_CCHC

Graphical View of Domain Structure for InterPro Entry Q6ZR62

ProtoNet protein and cluster: Q6ZR62

1 Blocks protein domain: IPB001878 C2HC-type zinc-finger signature

UniProtKB/Swiss-Prot: ZCH16_HUMAN, Q6ZR62
Similarity: Contains 1 CCHC-type zinc finger


Find genes that share domains with ZCCHC16           About GenesLikeMe


(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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, 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--
     
Find genes that share ontologies with ZCCHC16           About GenesLikeMe


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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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Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
cytosol2
nucleus2
extracellular1

(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 ZCCHC16
Interactions:

    Search GeneGlobe Interaction Network for ZCCHC16

(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 Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for ZCCHC16 (ZCH16)



(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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for ZCCHC16 gene: 
NM_001004308.2  

Unigene Cluster for ZCCHC16:

Zinc finger, CCHC domain containing 16
Hs.368140
Unigene Representative Sequence: NM_001004308
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000340433(uc022cct.1)
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Additional mRNA sequence: 

AK128465.1 BC137430.1 BC137433.1 

1 DOTS entry:

DT.101974423 

2 AceView cDNA sequences:

NM_001004308 AK128465 

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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ZCCHC16 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: AAATCCCATT
ZCCHC16 Expression
About this image

ZCCHC16 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

ZCCHC16 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.368140
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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 chordates.

Orthologs for ZCCHC16 gene from Selected species (see all 5)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Zcchc161 , 5 zinc finger, CCHC domain containing 161, 5 74.44(n)1
60.67(a)1
  X (65.85 cM)5
6192871  NM_001033795.41  NP_001028967.21 
 1446889075 
lizard
(Anolis carolinensis)
Reptilia --
--
(see all 45)
Uncharacterized protein
(see all 45)
27(a)
27(a)
(see all 45)
many ↔ many
many ↔ many
(see all 45)
4(2700154-2700921)
1(110649248-110650015)


ENSEMBL Gene Tree for ZCCHC16 (if available)
TreeFam Gene Tree for ZCCHC16 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for ZCCHC16 gene
PEG102  ZCCHC52  

Find genes that share paralogs with ZCCHC16           About GenesLikeMe



(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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Selected SNPs for ZCCHC16 (see all 5468)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr X posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1872269081,2
--111328239(+) CAGGCA/GTTACT 1 -- int10--------
rs1452709271,2
--111328316(+) GACCCA/GAGCTT 1 -- int10--------
rs1905203831,2
--111328323(+) GCTTTG/TTCTAG 1 -- int10--------
rs1827969371,2
--111328343(+) CAGCCA/TTGGGG 1 -- int10--------
rs1855448111,2
--111328530(+) GACTAA/GGTTTA 1 -- int10--------
rs1902438731,2
--111328584(+) GTTAAA/TATGTA 1 -- int10--------
rs1512503041,2
--111328636(+) CCATAC/GTGGTA 1 -- int10--------
rs677995091,2
C,F--111329067(+) TATTTG/TGTGAG 1 -- int12Minor allele frequency- T:0.33WA CSA 3
rs1500153191,2
--111329068(+) ATTTTA/GTGAGG 1 -- int10--------
rs1831857371,2
--111329078(+) GAAACA/GACATA 1 -- int10--------

HapMap Linkage Disequilibrium report for ZCCHC16 (111326253 - 111576253 bp, first 250kb of ZCCHC16)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for ZCCHC16 (see all 13):    About this table    
Variant IDTypeSubtypePubMed ID
esv2659800CNV Deletion23128226
esv2740381CNV Deletion23290073
nsv7041CNV Insertion18451855
esv274504CNV Insertion20981092
nsv513620CNV Insertion21212237
esv270032CNV Insertion20981092
nsv508792CNV Insertion20534489
nsv510551CNV Loss20534489
dgv522n21CNV Gain19592680
nsv523375CNV Gain19592680

Human Gene Mutation Database (HGMD): ZCCHC16
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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Find genes that share disorders with ZCCHC16           About GenesLikeMe

Genetic Association Database (GAD): ZCCHC16
Human Genome Epidemiology (HuGE) Navigator: ZCCHC16 (1 document)

Export disorders for ZCCHC16 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 ZCCHC16 gene integrated from 10 sources:
(articles sorted by number of sources associating them with ZCCHC16)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Genome-wide association study of biochemical traits in Korcula Island, Croatia. (PubMed id 19260141)1, 4 Zemunik T....Rudan I. (Croat. Med. J. 2009)
  2. A family of neofunctionalized Ty3/gypsy retrotransposon genes in mammalian genomes. (PubMed id 16093683)1, 3 Brandt J.... Volff J.-N. (Cytogenet. Genome Res. 2005)
  3. Transposable elements as a source of genetic innovation: expression and evolution of a family of retrotransposon-derived neogenes in mammals. (PubMed id 15716091)1, 3 Brandt J.... Volff J.-N. (Gene 2005)
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
  5. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (amp 2008)
  6. The DNA sequence of the human X chromosome. (PubMed id 15772651)2 Ross M.T.... Bentley D.R. (Nature 2005)
  7. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

(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: 340595 HGNC: 25214 AceView: FLJ46608 Ensembl:ENSG00000187823 euGenes: HUgn340595
ECgene: ZCCHC16 H-InvDB: ZCCHC16

(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 ZCCHC16 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 ZCCHC16 gene:
Search GeneIP for patents involving ZCCHC16

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, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, 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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 ELISAs for ZCCHC16
 CLIAs for ZCCHC16



 Browse ESI BIO Cell Lines and PureStem Progenitors for ZCCHC16
 Gene Synthesis
 Protein Engineering
 Variant Library Synthesis
 Codon Optimization
 Protein Production and Purification
 Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZCCHC16
 SwitchGear 3'UTR luciferase reporter plasmids for ZCCHC16
 SwitchGear Promoter luciferase reporter plasmids for ZCCHC16
 Search ThermoFisher Antibodies for ZCCHC16
 Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ZCCHC16
 inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for ZCCHC16
 inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for ZCCHC16
 Search LSBio for Antibodies for ZCCHC16
Customized transgenic rodents for:
 Humanization
 Biomarker expression
 Off-target effect monitoring
 Translational medicine
 Tissue-specific gene expresssion
 Time-controlled gene expresssion
 Browse compounds at ApexBio
 Search Addgene for plasmids for ZCCHC16
  Search eBioscience for proteins for ZCCHC16
  Search eBioscience for elisas for ZCCHC16
  eBioscience FlowRNA Probe Sets
       
GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014

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