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ZNF546 Gene

protein-coding   GIFtS: 41

GC19P036939
zinc finger protein 546
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: ZNF49)
Products    

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

Aliases & Descriptions
zinc finger protein 5461 2
MGC435371 2
Zinc finger protein 492 3
ZNF492 3

External Ids:    HGNC: 286711   Entrez Gene: 3393272   Ensembl: ENSG000001871877   UniProtKB: Q86UE33   

Export aliases for ZNF546 gene to outside databases

Previous GC identifers: GC19P045195 GC19P045196 GC19P040503


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

UniProtKB/Swiss-Prot: ZN546_HUMAN, Q86UE3
Function: May be involved in transcriptional regulation


(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 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section

Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ZNF546 gene promoter:
         HNF-4alpha2   C/EBPbeta   Elk-1   CUTL1   FAC1   GATA-1   Nkx6-1   STAT5A   MyoD   LUN-1   
         Other transcription factors

   Search SABiosciences Chromatin IP Primers for ZNF546

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays for ZNF546 


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

Entrez Gene cytogenetic band: 19q13.2   Ensembl cytogenetic band:  19q13.2   HGNC cytogenetic band: 19q13.2

ZNF546 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZNF546 gene location

GeneLoc gene densities for chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P036939:  view genomic region     (about GC identifiers)

Start:
36,939,407 bp from pter
End:
36,959,978 bp from pter
Size:
20,572 bases
Orientation:
plus strand

1 alternative location:
Chr19+ 40,502,943-40,523,514     
RefSeq DNA sequence:
NC_000019.9  NT_011109.16  

(According to 1UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
About This Section

UniProtKB/Swiss-Prot: ZN546_HUMAN, Q86UE3 (See protein sequence)
Recommended Name: Zinc finger protein 546  
Size: 836 amino acids; 98405 Da
Subcellular location: Nucleus (Probable)
Secondary accessions: A8K913

Explore the universe of human proteins at neXtProt for ZNF546: NX_Q86UE3 

REFSEQ proteins: NP_848639.2  

ENSEMBL proteins: 
ENSP00000414368 ENSP00000375896 ENSP00000339823 


Human Recombinant Proteins 
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2 Gene Ontology (GO) cellular component terms (GO ID links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005622 intracellular IEA--
GO:0005634 nucleus IEA--
About this table

ZNF546 for ontologies           About GeneDecksing



Antibodies for ZNF546: 
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Assays for ZNF546: 
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Browse Enzo Life Sciences for kits & assays
Browse ELISAs and CLIAs at Uscn 


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

ZNF546 for domains           About GeneDecksing

4 InterPro domains/families:
 IPR001909 Krueppel-associated_box
 IPR015880 Znf_C2H2-like
 IPR013087 Znf_C2H2/integrase_DNA-bd
 IPR007087 Znf_C2H2

Graphical View of Domain Structure for InterPro Entry Q86UE3

ProtoNet protein and cluster: Q86UE3

1 Blocks protein family: IPB001909 KRAB box

UniProtKB/Swiss-Prot: ZN546_HUMAN, Q86UE3
Similarity: Belongs to the krueppel C2H2-type zinc-finger protein family
Similarity: Contains 22 C2H2-type zinc fingers
Similarity: Contains 1 KRAB domain


(According to UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
About This Section

UniProtKB/Swiss-Prot: ZN546_HUMAN, Q86UE3
Function: May be involved in transcriptional regulation

Inhib.
RNA:
    
Browse for Gene Knock-down Tools from Millipore
Browse Nano Scale siRNA at Sigma-Aldrich
Sigma-Aldrich esiRNA and siRNA for ZNF546
Sigma-Aldrich shRNA for ZNF546
OriGene 29mer shRNA kits in GFP-retroviral vector: ZNF546
OriGene shRNA RFP: ZNF546
OriGene basic RS shRNA: ZNF546
OriGene siRNA: ZNF546
QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of ZNF546 
miRNA:Sigma-Aldrich microRNA Mimics for ZNF546
Browse microRNA target validation systems at Sigma-Aldrich 
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of ZNF546 
Search SABiosciences for Assays for microRNAs that regulate ZNF546

Gene
Editing:
Browse CompoZr Knockout ZFN at Sigma-Aldrich 

Clones:Browse Clones for the Expression of Recombinant Proteins Available from Millipore
Browse iPSC Reprogramming Factors at Sigma-Aldrich
OriGene GFP tagged cDNA clones in CMV expression vector: ZNF546
OriGene Myc/DDK tagged cDNA clones in CMV expression vector: ZNF546
OriGene untagged cDNA clones in CMV expression vector: ZNF546
OriGene 3'-UTR clone: ZNF546 
Browse MicroRNA Expression Plasmids 
GenScript Custom cDNA clone Services for ZNF546 
Browse Sino Biological Human cDNA Clones

Cell
Lines:
  
GenScript Custom overexpressing Cell Line Services for ZNF546 

5/6 Gene Ontology (GO) molecular function terms (GO ID links to tree view) (see all 6):

GO IDQualified GO termEvidencePubMed IDs
GO:0003676 nucleic acid binding ----
GO:0003677 DNA binding IEA--
GO:0003700 sequence-specific DNA binding transcription factor activity ----
GO:0008270 zinc ion binding IEA--
GO:0043565 sequence-specific DNA binding ----
About this table

ZNF546 for ontologies           About GeneDecksing


(Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
About This Section

    SABiosciences Custom Pathway-Focused PCR Arrays for ZNF546 

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for ZNF546

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

GO IDQualified GO termEvidencePubMed IDs
GO:0006355 regulation of transcription, DNA-dependent IEA--
About this table

ZNF546 for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section
Browse Small Molecules at Sigma-Aldrich
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for ZNF546


(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Millipore,
siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
About This Section

Inhib.
RNA:
     
Browse for Gene Knock-down Tools from Millipore
Browse Nano Scale siRNA at Sigma-Aldrich
Sigma-Aldrich esiRNA and siRNA for ZNF546
Sigma-Aldrich shRNA for ZNF546
OriGene 29mer shRNA kits in GFP-retroviral vector: ZNF546
OriGene shRNA RFP: ZNF546
OriGene basic RS shRNA: ZNF546
OriGene siRNA: ZNF546
QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of ZNF546 
miRNA: Sigma-Aldrich microRNA Mimics for ZNF546
Browse microRNA target validation systems at Sigma-Aldrich 
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of ZNF546 
Search SABiosciences for Assays for microRNAs that regulate ZNF546
Clones: Browse FLAG tag genes at Sigma-Aldrich
OriGene GFP tagged cDNA clones in CMV expression vector: ZNF546
OriGene Myc/DDK tagged cDNA clones in CMV expression vector: ZNF546
OriGene untagged cDNA clones in CMV expression vector: ZNF546
OriGene 3'-UTR Clone: ZNF546 
Browse OriGene MicroRNA Expression Plasmids 
GenScript Custom cDNA clone Services for ZNF546 
Primers: OriGene genome-wide validated SYBR primer pairs: ZNF546
Browse OriGene validated miRNA SYBR primer pairs 
SABiosciences RT2 qPCR Primer Assay for ZNF546: PPH10904A

REFSEQ mRNAs for ZNF546 gene: 

NM_178544.3  

Additional cDNA sequence: 

AF035364.1 AK122968.1 AK172809.1 AK292528.1 BC045649.1 

3 DOTS entries:

DT.99987425  DT.121501069  DT.406250 

24/26 AceView cDNA sequences (see all 26):

AK122968 AI268476 BU674437 AW072437 AI342853 NM_178544 AL039876 CD677747 
BC045649 AI871774 AL039875 AL713040 BU187956 AK172809 AW613481 AA600843 
BE670785 BE091796 T56944 AI123273 T48582 T56945 BE548749 BE091778 

highest scoring ESTs for ZNF546:

AA047374 AA130174 AI268476 AI342853 AK122968 AK172809 AW613481 BC045649 BE548749 BU674437 

Unigene Cluster for ZNF546:

Zinc finger protein 546
Hs.666807  [show with all ESTs]
Unigene Representative Sequence: NM_178544


GeneLoc Exon Structure

5/6 Alternative Splicing Database (ASD) splice patterns (SP) for ZNF546 (see all 6)

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

About this scheme

ECgene alternative splicing isoforms for ZNF546
3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000444043 ENST00000392042 ENST00000347077(uc002oms.2 uc002omt.2)


(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Primers from OriGene and/or SABiosciences )
About This Section

ZNF546 expression in normal and diseased human tissues

1  / 2  / 3

3 probe-sets matching ZNF546 gene

Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
61478_at2, 3 U95-C 1 0.56 1.00 1.00 1.00 AL039876 0.60 1.00 0.82 1
240429_at2, 3 U133-B 1 0.27 1.00 -- -- AA130174 0.80 1.00 0.91 1
240429_at2 U133Plus2 1 0.27 1.00 -- -- -- -- -- -- --
About this table

ZNF546 for expression           About GeneDecksing

Data from Genenote  (Publications) and GNF BioGPS
    About these images
ZNF546 gene expression
ZNF546 gene electronic northern expression
ZNF546 gene sage expression
About these images

CGAP SAGE TAG: TGAGAGGAAG

SOURCE GeneReport for Unigene cluster: Hs.666807
Primers: OriGene genome-wide validated SYBR primer pairs: ZNF546
Browse OriGene validated miRNA SYBR primer pairs 
SABiosciences RT2 qPCR Primer Assay for ZNF546: PPH10904A
    SABiosciences Custom PCR Arrays for ZNF546 


(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for ZNF546 gene from 3 species
Organism Gene Locus Description Human
Similarity
NCBI accessions
chimpanzee
(Pan troglodytes)
ZNF5461   -- zinc finger protein 546 99.4(n)
98.8(a)
468879  XM_524265.2  XP_524265.2 
mouse
(Mus musculus)
Zfp111 , 5 5 (68.22 cM)5
zinc finger protein 111, 5 60.33(n)1
54.75(a)1
226481  NM_172462.41  NP_766050.11 
 AA1626755  AK0328725  (see all 15)
tropical clawed frog
(Silurana tropicalis)
BX759592.12   --   -- 75.23(n)  BX759592.1 
About this table        Species with no ortholog for ZNF546

ENSEMBL Gene Tree for ZNF546 (if available)

(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section
Paralogs for ZNF546 gene
ZNF780B2  ZNF912  ZNF4202  ZNF1892  ZNF1072  ZNF7292  ZNF992  ZNF7212  
ZNF8362  ZNF585B2  ZNF6242  ZNF5942  ZFP622  ZNF8412  ZNF2082  

ZNF546 for paralogs           About GeneDecksing



(SNPs according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
About This Section

10/223 NCBI SNPs in ZNF546 are shown (see all 223)
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidChr 19 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
----------
rs1708991,2
H40501778(+) cagtgG/Caagtc 1 -- ng514Minor allele frequency- C:0.00NS EA 418
rs1730611,2
C,F,A,40507965(+) AGAGTT/CTGTGT 1 -- int18Minor allele frequency- C:0.21NS EA NA WA 628
rs1835041,2
C,F,A,40508115(+) GTGCCA/GTCATA 1 -- int111Minor allele frequency- G:0.14NS EA NA WA 914
rs2343001,2
F,H40522012(+) ggaaaG/Aacagg 1 -- ut31 ese34Minor allele frequency- A:0.01NS EA 396
rs2343011,2
C,F,A,40522018(+) acaggA/Ggttcg 1 -- ut31 ese39Minor allele frequency- G:0.08NS EA NA WA 586
rs2343041,2
C,F,A,40515744(+) ttgctA/Gtatgt 1 -- int17Minor allele frequency- G:0.27NS EA WA 558
rs2343051,2
F,H40515958(+) aatggG/Ttagat 1 -- int14Minor allele frequency- T:0.01NS EA 360
rs2343061,2
C,F,40516486(+) catttT/Ccctaa 1 -- int16Minor allele frequency- C:0.29NS NA EA WA 420
rs2343071,2
C,A40517202(+) atctcA/Ggctca 1 -- int10--------
rs2343081,2
C,A40517266(+) tagctG/Aggact 1 -- int11Minor allele frequency- A:0.50WA 2
About this table

HapMap Linkage Disequilibrium images for ZNF546 (up to first 250kb)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for ZNF546
     1 CNV: 4079

QIAGEN SeqTarget long-range PCR primers for resequencing ZNF546 

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, LSDB, HGMD, GAD, HuGE Navigator, and/or TGDB.)
About This Section
  --

(Possibly Related Articles in Doctor's Guide)
About This Section
  --

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

6 PubMed articles for ZNF546 gene integrated from 7 sources:
(articles sorted by number of sources associating them with ZNF546)
  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. (2004)
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
  5. The consensus coding sequences of human breast and colorectal cancers. (PubMed id 16959974)2 Sjoeblom T.... Velculescu V.E. (2006)
  6. Clustering of C2-H2 zinc finger motif sequences within telomeric and fragile site regions of human chromosomes. (PubMed id 1505991)1 Lichter P....Ward D.C. (1992)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
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  Query String
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OMIM
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: 339327 HGNC: 28671 AceView: ZNF546 Ensembl:ENSG00000187187 euGenes: HUgn339327
ECgene: ZNF546 H-InvDB: ZNF546

(According to HUGE)
About This Section
  --

(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
  --

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from XenneX, Inc.)
About This Section
Patent Information for ZNF546 gene:
Search GeneIP for patents involving ZNF546

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



(Antibodies, recombinant proteins, and assays by Millipore, Sigma-Aldrich, R&D Systems, Qiagen, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Epitomics, ProSpec, Uscn,
Clones available from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, PCR Arrays from SABiosciences, Drugs and/or compounds by Sigma-Aldrich, Tocris Bioscience, and/or Enzo Life Sciences)
About This Section

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 QIAGEN Custom miScript Target Protector blocks miRNA-binding site of ZNF546
 SeqTarget long-range PCR primers for resequencing ZNF546
 QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays for ZNF546
 QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of ZNF546
 GenScript Custom Purified and Recombinant Proteins Services for ZNF546 GenScript Custom cDNA clones with any tag delivered in your preferred vector Services for ZNF546
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