ZNF540 Gene
protein-coding GIFtS: 48
GCID: GC19P038086
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zinc finger protein 540
| |
Aliases for ZNF540 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb) About This Section
|
| Aliases |
|---|
| Zinc Finger Protein 5401 2 | | DKFZp547B07141 | | Nbla105122 | | Putative Protein Product Of Nbla105122 |
Export aliases for ZNF540 gene to outside databasesPrevious GC identifers: GC00U914377 GC19P042735 GC19P042736 GC19P038039 GC19P034535 |
Summaries for ZNF540 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
| UniProtKB/Swiss-Prot: ZN540_HUMAN, Q8NDQ6Function: May act as a transcriptional repressor
|
Genomic Views for ZNF540 gene
(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_000019.9 NC_018930.1 NT_011109.16
Regulatory elements: SABiosciences Regulatory transcription factor binding sites in the ZNF540 gene promoter: FOXJ2 (long isoform) FOXJ2 POU6F1 (c2) LCR-F1 Other transcription factors
Search SABiosciences Chromatin IP Primers for ZNF540
Epigenetics:
|  | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ZNF540 |
Genomic Location: Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 19q13.12 Ensembl cytogenetic band: 19q13.12 HGNC cytogenetic band: 19q13.13ZNF540 Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different)

GeneLoc information about chromosome 19 GeneLoc Exon Structure GeneLoc location for GC19P038086: view genomic region
(about GC identifiers)
Start:
|
38,042,308 bp from pter |
End:
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38,105,000 bp from pter |
Size:
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62,693 bases |
Orientation:
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plus strand |
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Proteins for ZNF540 gene
(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: ZN540_HUMAN, Q8NDQ6 (See
protein sequence)Recommended Name: Zinc finger protein 540 Size: 660 amino acids; 77094 Da
Subunit: May interact with MVP
Subcellular location: Nucleus. Cytoplasm
Sequence caution: Sequence=AAH17940.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-Asequence; Sequence=CAD97942.1; Type=Frameshift; Positions=580;
Secondary accessions: A0AVS5 A8K371 Q05D58 Q3LIC5 Q6ZN36 Q7Z3C8 Q86T31Alternative splicing: 3 isoforms: Q8NDQ6-1 Q8NDQ6-2 Q8NDQ6-4 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for ZNF540: NX_Q8NDQ6
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q8NDQ6 ZNF540 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (3 alternative transcripts):
NP_001165696.1 NP_001165697.1 NP_689819.1 ENSEMBL proteins: ENSP00000466274 ENSP00000467118 ENSP00000324598 ENSP00000467667 ENSP00000465503 ENSP00000468113 ENSP00000343768 Reactome Protein details: Q8NDQ6 Human Recombinant Protein Products:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table
ZNF540 for ontologies About GeneDecksing
ZNF540 Antibody Products: Assay Products for ZNF540: |
Protein
Domains / Families for ZNF540 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
ZNF540 for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q8NDQ6ProtoNet protein and cluster: Q8NDQ6 1 Blocks protein family: IPB001909 KRAB box
UniProtKB/Swiss-Prot: ZN540_HUMAN, Q8NDQ6Similarity: Belongs to the krueppel C2H2-type zinc-finger protein familySimilarity: Contains 17 C2H2-type zinc fingersSimilarity: Contains 1 KRAB domain |
Function for ZNF540 gene
(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
| Function Summary: UniProtKB/Swiss-Prot: ZN540_HUMAN, Q8NDQ6Function: May act as a transcriptional repressor
Clone Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for ZNF540 (see all 3) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for ZNF540 (see all 3) OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector (see all 3): ZNF540 (NM_152606) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for ZNF540 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ZNF540  |
In Situ Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZNF540 |
Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table
ZNF540 for ontologies About GeneDecksing
1 GenomeRNAi human phenotype for ZNF540:
|
Pathways & Interactions for ZNF540 gene
(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
| Unified GeneCards pathways  About this table  See pathways by source
| Super-pathway | contained gene-specific pathways |
|---|
| 1 | Generic Transcription Pathway | |
Pathway sources See GeneCards unified pathways Show all pathways
2
Reactome Pathways for ZNF540
ZNF540 for pathways About GeneDecksing
Interactions:
SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for ZNF540
Gene Ontology (GO): 2 biological process terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0006351 | transcription, DNA-dependent |
IEA | -- | | GO:0006355 | regulation of transcription, DNA-dependent |
IEA | -- |
ZNF540 for ontologies About GeneDecksing
|
Drugs & Compounds for ZNF540 gene(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 Tocris compounds for ZNF540 Search CenterWatch for drugs/clinical trials and news about ZNF540 / ZN540 
|
Transcripts for ZNF540 gene(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 ZNF540 gene (3 alternative transcripts): NM_001172225.2 NM_001172226.2 NM_152606.4 Unigene Cluster for ZNF540: Zinc finger protein 540 Hs.728927 [show with all ESTs]Unigene Representative Sequence: NM_15260610 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000592533 ENST00000589117 ENST00000587220 ENST00000589857 ENST00000316433(uc002ogq.3 uc002ogu.3) ENST00000590588 ENST00000586134 ENST00000586792 ENST00000343599(uc010efq.3) ENST00000589285
Clone Products: |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for ZNF540 (see all 3) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for ZNF540 (see all 3) OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector (see all 3): ZNF540 (NM_152606) | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for ZNF540 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ZNF540  |
Additional cDNA sequence: AB074186.1 AK122597.1 AK131388.1 AK290486.1 AL832100.1 AL832687.1 BC017940.1 BX537980.1 7 DOTS entries: DT.318981 DT.121418652 DT.108046 DT.91916551 DT.100708230 DT.100758717 DT.91680306 24/133 AceView cDNA sequences (see all 133): CK821801 AI032287 AA781724 BE219465 AI023879 BX118256 BX117928 AL832687 BX115985 BC063448 AA905311 AL832315 AA321768 AK122597 BX097888 AK131388 NM_152606 BX647800 CR616392 N89873 CK430096 AL524892 AL518023 AI803971 GeneLoc Exon Structure
5/6 Alternative Splicing Database (ASD) splice patterns (SP) for ZNF540 (see all 6) About this scheme
| ExUns: | 1a | · | 1b | ^ | 2 | ^ | 3 | ^ | 4a | · | 4b | ^ | 5a | · | 5b | · | 5c | · | 5d | · | 5e | |
| SP1: | |   | |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |
| SP2: | |   | |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |
| SP3: | |   | |   | |   | |   | - |   | - |   | |   | |   | |   | |   | |   | |
| SP4: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP5: | |   | |   | |   | - |   | |   | - |   | |   | |   | |   | |   | |   |
ECgene alternative splicing isoforms for ZNF540
|
Expression for ZNF540 gene
(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
| ZNF540 expression in normal human tissues (normalized intensities) See probesets specificity/sensitivity at GeneAnnot About this imageBioGPS CGAP TAG: CTGGCACCTT
About this image See ZNF540 Protein Expression from SPIRE MOPED and PaxDB Genevestigator expression for ZNF540
SOURCE GeneReport for Unigene cluster: Hs.728927 UniProtKB/Swiss-Prot: ZN540_HUMAN, Q8NDQ6Tissue specificity: Expressed in several fetal tissues, including gut, heart, brain, muscle, lung, testis and liver SABiosciences Custom PCR Arrays for ZNF540
Primer Products: |  | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for ZNF540 Browse OriGene validated miRNA SYBR primer pairs
| |  | SABiosciences RT2 qPCR Primer Assay in human, mouse / rat ZNF540 | |  | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat ZNF540 | |  | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat ZNF540 | In Situ Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZNF540 |
Orthologs for ZNF540 gene
(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
|
--
ENSEMBL Gene Tree for ZNF540 (if available) TreeFam Gene Tree for ZNF540 (if available)  |
Paralogs for ZNF540 gene(Paralogs according to
1HomoloGene, 2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68) About This Section
| Paralogs for ZNF540 gene
- ZNF4202 ZNF5292 ZFP302 ZNF1402 ZNF780A2 ZNF3832 ZNF7902 ZNF5822
- ZFP822 ZNF302 ZNF5732 ZNF5712 ZNF3312 ZFP142 ZNF4612 ZNF2832
- ZNF4042 ZNF8292 ZNF6072 ZNF5652 ZNF5662 ENSG000002675522
18/532 SIMAP similar genes for ZNF540 using alignment to 4 protein entries: ZN540_HUMAN (see all proteins)
(see all similar genes):ZNF738 POM121C ZNF283 ZNF420 ZNF232 ZFP90 ZNF818P ZNF81 ZNF761 MGC12518 ZNF596 ZNF826P ZSCAN16 ZNF493 ZNF230 ZNF10 ZNF235 ZNF317
ZNF540 for paralogs About GeneDecksing
|
Genomic Variants for ZNF540 gene(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
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical significance | Chr 19 pos | Sequence | # | AA Chg | Type | More | # | Allele freq | Pop | Total sample | More |
|---|
HapMap Linkage Disequilibrium report for ZNF540 (38042308 - 38105000 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions) Database of Genomic Variants (DGV): 1 variation for ZNF540 1 CNV: 3190  | SABiosciences Cancer Mutation PCR Assays |
|  | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing ZNF540 |
|
Disorders
/ Diseases for ZNF540 gene
(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
|
ZNF540 for disorders About GeneDecksing
OMIM gene information: 613903
OMIM disorders: --
1 disease for ZNF540: About MalaCardsneuroblastoma Export disorders for ZNF540 gene to outside databases
|
Publications for ZNF540 gene (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 ZNF540 gene integrated from 9 sources: (articles sorted by number of sources associating them with ZNF540) | |  | Utopia: connect your pdf to the dynamic world of online information |
- A novel human zinc finger protein ZNF540 interacts with MVP and inhibits transcriptional activities of the ERK signal pathway. (PubMed id 16815308)1, 2 Xiang Z....Li Y. (2006)
- 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)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
- Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)
- The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)
- The consensus coding sequences of human breast and colorectal cancers. (PubMed id 16959974)2 Sjoeblom T.... Velculescu V.E. (2006)
- Neuroblastoma oligo-capping cDNA project: toward the understanding of the genesis and biology of neuroblastoma. (PubMed id 12880961)2 Ohira M.... Nakagawara A. (2003)
- 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. (2002)
|
External Searches for ZNF540 gene
(in PubMed,
OMIM, and NCBI Bookshelf) About This Section
|
|
Genome Databases showing ZNF540 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing ZNF540 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing ZNF540 gene(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
|
| Name | Description |
| PharmGKB entry for ZNF540 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for ZNF540 gene: Search GeneIP for patents involving ZNF540
GeneCards and IP: Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products for ZNF540 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences), In Situ Hybridization Assays from Advanced Cell Diagnostics About This Section
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| | | | Browse OriGene Antibodies | | Browse OriGene shRNA RFPs | | Browse OriGene 29mer shRNA kits in GFP-retroviral vector | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for ZNF540 | | Browse OriGene Protein Over-expression Lysates | | Browse OriGene Fluorogenic Cell Assay Kits | | OriGene siRNA for ZNF540 | | OriGene 3'-UTR Clone for ZNF540 | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for ZNF540 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for ZNF540 | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | OriGene Custom Antibody Services for ZNF540 | | OriGene Custom Protein Services for ZNF540 | | OriGene Custom Immunoassay Development | | |
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 | | ZNF540 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ZNF540 |
|  |  |  | | | Search ThermoFisher Antibodies for ZNF540 |
| | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ZNF540 |
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