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ZSCAN4 Gene

protein-coding   GIFtS: 47
GCID: GC19P058180

Zinc Finger And SCAN Domain Containing 4

(Previous name: zinc finger protein 494)
(Previous symbol: ZNF494)
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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 And SCAN Domain Containing 41 2
ZNF4941 2 3 5
Zinc Finger Protein 4941 2 3
Zinc Finger And SCAN Domain-Containing Protein 42

External Ids:    HGNC: 237091   Entrez Gene: 2015162   Ensembl: ENSG000001805327   OMIM: 6134195   UniProtKB: Q8NAM63   

Export aliases for ZSCAN4 gene to outside databases

Previous GC identifers: GC19P062874 GC19P062875 GC19P054492


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for ZSCAN4 Gene:
The ZSCAN4 gene encodes a protein involved in telomere maintenance and with a key role in the critical feature of
mouse embryonic stem (ES) cells, namely, defying cellular senescence and maintaining normal karyotype for many
cell divisions in culture (Zalzman et al., 2010 (PubMed 20336070)).(supplied by OMIM, May 2010)

GeneCards Summary for ZSCAN4 Gene:
ZSCAN4 (zinc finger and SCAN domain containing 4) is a protein-coding gene. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity.

UniProtKB/Swiss-Prot: ZSCA4_HUMAN, Q8NAM6
Function: Embryonic stem (ES) cell-specific transcription factor required to regulate ES cell pluripotency. Binds
telomeres and plays a key role in genomic stability in ES cells by regulating telomere elongation. Acts as an
activator of spontaneous telomere sister chromatid exchange (T-SCE) and telomere elongation in undifferentiated
ES cells (By similarity)




(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_000019.9  NT_011109.17  NC_018930.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the ZSCAN4 gene promoter:
         SRF   Elk-1   FOXF2   SRF (504 AA)   POU3F2 (N-Oct-5a)   POU3F2 (N-Oct-5b)   POU3F2   FOXC1   FOXO1a   FOXO1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZSCAN4 promoter sequence
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZSCAN4


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

Entrez Gene cytogenetic band: 19q13.43   Ensembl cytogenetic band:  19q13.43   HGNC cytogenetic band: 19q13.43

ZSCAN4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZSCAN4 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P058180:  view genomic region     (about GC identifiers)

Start:
58,180,303 bp from pter      End:
58,190,520 bp from pter
Size:
10,218 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., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: ZSCA4_HUMAN, Q8NAM6 (See protein sequence)
Recommended Name: Zinc finger and SCAN domain-containing protein 4  
Size: 433 amino acids; 48957 Da
Secondary accessions: Q3MIQ2

Explore the universe of human proteins at neXtProt for ZSCAN4: NX_Q8NAM6

Explore proteomics data for ZSCAN4 at MOPED


See ZSCAN4 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_689890.1  
ENSEMBL proteins: 
 ENSP00000321963  

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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:
ZNF: Zinc fingers, C2H2-type

5 InterPro protein domains:
 IPR008916 Retrov_capsid_C
 IPR003309 Tscrpt_reg_SCAN
 IPR015880 Znf_C2H2-like
 IPR013087 Znf_C2H2/integrase_DNA-bd
 IPR007087 Znf_C2H2

Graphical View of Domain Structure for InterPro Entry Q8NAM6

ProtoNet protein and cluster: Q8NAM6

1 Blocks protein domain: IPB003309 Transcriptional regulator SCAN

UniProtKB/Swiss-Prot: ZSCA4_HUMAN, Q8NAM6
Similarity: Contains 4 C2H2-type zinc fingers
Similarity: Contains 1 SCAN box domain


Find genes that share domains with ZSCAN4           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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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Molecular Function:

     UniProtKB/Swiss-Prot Summary: ZSCA4_HUMAN, Q8NAM6
Function: Embryonic stem (ES) cell-specific transcription factor required to regulate ES cell pluripotency. Binds
telomeres and plays a key role in genomic stability in ES cells by regulating telomere elongation. Acts as an
activator of spontaneous telomere sister chromatid exchange (T-SCE) and telomere elongation in undifferentiated
ES cells (By similarity)

     Gene Ontology (GO): 3 molecular function terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003677DNA binding IEA--
GO:0003700sequence-specific DNA binding transcription factor activity IEA--
GO:0046872metal ion binding IEA--
     
Find genes that share ontologies with ZSCAN4           About GenesLikeMe


Animal Models:
   genOway: Develop your customized and physiologically relevant rodent model for ZSCAN4

miRNA
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miRTarBase miRNAs that target ZSCAN4:
hsa-mir-122-5p (MIRT023361)

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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 UniProtKB/Swiss-Prot
ZSCA4_HUMAN, Q8NAM6: Nucleus (By similarity). Chromosome, telomere (By similarity)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
nucleus4
cytosol2

Gene Ontology (GO): 2 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0000784nuclear chromosome, telomeric region ISS--
GO:0005634nucleus ----

Find genes that share ontologies with ZSCAN4           About GenesLikeMe


(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 ZSCAN4
Interactions:

    Search GeneGlobe Interaction Network for ZSCAN4

STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

5 Interacting proteins for ZSCAN4 (Q8NAM62, 3 ENSP000003219634) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
SMAD1Q157972, 3MINT-62000 I2D: score=3 
SMAD9O151982, 3MINT-62085 I2D: score=3 
ENSG00000230336ENSP000004000474STRING: ENSP00000400047
ENSG00000235068ENSP000004050414STRING: ENSP00000405041
ENSG00000237582ENSP000003916814STRING: ENSP00000391681
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Gene Ontology (GO): 3 biological process terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006351transcription, DNA-templated IEA--
GO:0006355regulation of transcription, DNA-templated ----
GO:0010833telomere maintenance via telomere lengthening ISS--

Find genes that share ontologies with ZSCAN4           About GenesLikeMe



(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 ZSCAN4 (ZSCA4)



(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 ZSCAN4 gene: 
NM_152677.2  

Unigene Cluster for ZSCAN4:

Zinc finger and SCAN domain containing 4
Hs.469663  [show with all ESTs]
Unigene Representative Sequence: NM_152677
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000318203(uc002qpu.3)
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Additional mRNA sequence: 

AK092424.1 BC101738.1 BC101740.1 

1 DOTS entry:

DT.75129322 

6 AceView cDNA sequences:

AX747538 AK092424 AI138628 NM_152677 BX118882 BG572132 

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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ZSCAN4 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GAATTTGTCA
ZSCAN4 Expression
About this image

ZSCAN4 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

ZSCAN4 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.469663
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In Situ
Assay Products:
 

 
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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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ENSEMBL Gene Tree for ZSCAN4 (if available)
TreeFam Gene Tree for ZSCAN4 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for ZSCAN4 gene
9 SIMAP similar genes for ZSCAN4 using alignment to 1 protein entry:     ZSCA4_HUMAN:
ZNF    ZNF501    ZNF664    ZNF697    ZNF589    ZNF702P
ZNF32    ZNF844    ZNF323

Find genes that share paralogs with ZSCAN4           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 ZSCAN4 (see all 339)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 19 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs730645801,2
C--58178398(+) CAAGTT/CGAGAT 1 -- us2k14Minor allele frequency- C:0.17NA WA EA 360
rs129835961,2
C,F,A,H--58178505(+) ATCCTT/CATTTG 1 -- us2k121Minor allele frequency- C:0.28NS EA NA CSA WA 2348
rs596506521,2
C,F--58178576(+) CCTAAG/CTTGGG 1 -- us2k14Minor allele frequency- C:0.16WA CSA 124
rs1874615531,2
--58178594(+) CAGGTA/CATTTC 1 -- us2k10--------
rs562044061,2
C,F--58178854(+) ATTTAG/AGATCT 1 -- us2k15Minor allele frequency- A:0.17NA CSA WA EA 362
rs1468886881,2
--58179023(+) AGTTAC/TACACC 1 -- us2k10--------
rs1919050401,2
--58179122(+) TCCTTA/GCAGCT 1 -- us2k10--------
rs1396708111,2
C--58179143(+) CTCAAG/TGAACT 1 -- us2k10--------
rs104038511,2
C,F,H--58179234(+) TCTACA/GTTTTT 1 -- us2k128Minor allele frequency- G:0.50NS EA NA WA CSA 2776
rs129764391,2
C--58179251(+) TTTTTG/TTTTGT 1 -- us2k1 tfbs3 trp34Minor allele frequency- T:0.00NA 8

HapMap Linkage Disequilibrium report for ZSCAN4 (58180303 - 58190520 bp)

Structural Variations
     Database of Genomic Variants (DGV) 2 variations for ZSCAN4:    About this table    
Variant IDTypeSubtypePubMed ID
dgv4028n71CNV Loss21882294
nsv912528CNV Gain21882294

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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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OMIM gene information: 613419    OMIM disorders: --


Find genes that share disorders with ZSCAN4           About GenesLikeMe


Export disorders for ZSCAN4 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 ZSCAN4 gene integrated from 10 sources:
(articles sorted by number of sources associating them with ZSCAN4)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
  3. Zscan4 regulates telomere elongation and genomic stability in ES cells. (PubMed id 20336070)1 Zalzman M....Ko M.S. (Nature 2010)
  4. An atlas of combinatorial transcriptional regulation in mouse and man. (PubMed id 20211142)1 Ravasi T....Hayashizaki Y. (Cell 2010)
  5. Functional proteomics mapping of a human signaling pathway. (PubMed id 15231748)1 Colland F....Gauthier J.M. (Genome Res. 2004)
  6. 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: 201516 HGNC: 23709 AceView: ZNF494 Ensembl:ENSG00000180532 euGenes: HUgn201516
ECgene: ZSCAN4 H-InvDB: ZSCAN4

(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 ZSCAN4 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 ZSCAN4 gene:
Search GeneIP for patents involving ZSCAN4

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, eBioscience, antibodies-online, 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 genOway)
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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 , 7 Oct 2014

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