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Aliases for ZNF541 Gene

Aliases for ZNF541 Gene

  • Zinc Finger Protein 541 2 3 5

External Ids for ZNF541 Gene

Previous GeneCards Identifiers for ZNF541 Gene

  • GC00U914378
  • GC19M052716
  • GC19M052717
  • GC19M048023
  • GC19M044451

Summaries for ZNF541 Gene

GeneCards Summary for ZNF541 Gene

ZNF541 (Zinc Finger Protein 541) is a Protein Coding gene. GO annotations related to this gene include chromatin binding. An important paralog of this gene is TRERF1.

UniProtKB/Swiss-Prot for ZNF541 Gene

  • Component of some chromatin remodeling multiprotein complex that plays a role during spermatogenesis.

Additional gene information for ZNF541 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZNF541 Gene

Genomics for ZNF541 Gene

Regulatory Elements for ZNF541 Gene

Enhancers for ZNF541 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH19H047598 2 FANTOM5 Ensembl ENCODE dbSUPER 15.8 -27.0 -26982 4 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A ZNF2 YY1 SLC30A9 CBX5 ZNF541 NAPA NOP53 SNORD23 BBC3 BICRA INAFM1 GC19P047605 GC19P047592
GH19H047607 1.6 Ensembl ENCODE dbSUPER 16.2 -37.8 -37849 6 PKNOX1 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1 ZNF143 ZNF207 FOS ENSG00000269321 ZNF541 BSPH1 TPRX2P ELSPBP1 LOC105372430 ZC3H4 MEIS3 TPRX1 PRKD2
GH19H047657 1.5 Ensembl ENCODE dbSUPER 11.4 -90.0 -90026 10 PKNOX1 FOXA2 ATF1 MLX ARNT SIN3A BRCA1 YY1 ZNF121 ELK1 BICRA NOP53 ZC3H4 CCDC9 ZNF541 SNORD23 SULT2A1 GRWD1 ENSG00000278999 BICRA-AS1
GH19H047506 1.2 Ensembl ENCODE dbSUPER 11 +65.9 65940 2 CTCF MXI1 REST ZNF398 ZIC2 ZFHX2 GATA3 POLR2A GLIS1 ZBTB33 BICRA ZNF541 KPTN TMEM143 NAPA ENSG00000279861
GH19H047496 1.1 ENCODE dbSUPER 11.6 +75.6 75592 1 HDAC1 PKNOX1 ATF1 TBL1XR1 ARNT TCF12 ZNF766 GATA2 CREM ZBTB2 MEIS3 ZNF541 BICRA TMEM143 ENSG00000279861 NAPA
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ZNF541 on UCSC Golden Path with GeneCards custom track

Genomic Location for ZNF541 Gene

Chromosome:
19
Start:
47,520,685 bp from pter
End:
47,573,238 bp from pter
Size:
52,554 bases
Orientation:
Minus strand

Genomic View for ZNF541 Gene

Genes around ZNF541 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZNF541 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZNF541 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZNF541 Gene

Proteins for ZNF541 Gene

  • Protein details for ZNF541 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H0D2-ZN541_HUMAN
    Recommended name:
    Zinc finger protein 541
    Protein Accession:
    Q9H0D2
    Secondary Accessions:
    • Q8NDK8

    Protein attributes for ZNF541 Gene

    Size:
    1346 amino acids
    Molecular mass:
    145587 Da
    Quaternary structure:
    • Interacts with DNTTIP1 (PubMed:21573134). Identified in a complex with KCDT19, HDAC1 and HSPA2 (By similarity). Component of a histone deacetylase complex containing DNTTIP1, ZNF541, HDAC1 and HDAC2 (PubMed:21573134).
    SequenceCaution:
    • Sequence=AAI01051.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAI01052.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAI01053.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAI01054.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAB66780.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAD38720.2; Type=Frameshift; Positions=473; Evidence={ECO:0000305};

    Alternative splice isoforms for ZNF541 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ZNF541 Gene

Post-translational modifications for ZNF541 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for ZNF541 Gene

Domains & Families for ZNF541 Gene

Gene Families for ZNF541 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for ZNF541 Gene

Suggested Antigen Peptide Sequences for ZNF541 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ZNF541: view

No data available for UniProtKB/Swiss-Prot for ZNF541 Gene

Function for ZNF541 Gene

Molecular function for ZNF541 Gene

UniProtKB/Swiss-Prot Function:
Component of some chromatin remodeling multiprotein complex that plays a role during spermatogenesis.

Phenotypes From GWAS Catalog for ZNF541 Gene

Gene Ontology (GO) - Molecular Function for ZNF541 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003700 transcription factor activity, sequence-specific DNA binding IBA --
GO:0008134 transcription factor binding IBA --
GO:0044212 transcription regulatory region DNA binding IBA --
genes like me logo Genes that share ontologies with ZNF541: view
genes like me logo Genes that share phenotypes with ZNF541: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for ZNF541
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for ZNF541 Gene

Localization for ZNF541 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZNF541 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ZNF541 gene
Compartment Confidence
nucleus 5

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ZNF541 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000118 histone deacetylase complex ISS --
GO:0005634 nucleus ISS,IEA --
GO:0005667 transcription factor complex IBA --
genes like me logo Genes that share ontologies with ZNF541: view

Pathways & Interactions for ZNF541 Gene

SuperPathways for ZNF541 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZNF541 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006357 regulation of transcription from RNA polymerase II promoter IBA --
GO:0007275 multicellular organism development IEA --
GO:0007283 spermatogenesis IEA --
genes like me logo Genes that share ontologies with ZNF541: view

No data available for Pathways by source and SIGNOR curated interactions for ZNF541 Gene

Drugs & Compounds for ZNF541 Gene

No Compound Related Data Available

Transcripts for ZNF541 Gene

Unigene Clusters for ZNF541 Gene

Zinc finger protein 541:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for ZNF541
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for ZNF541 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12 ^ 13
SP1: - -
SP2: -
SP3:

Relevant External Links for ZNF541 Gene

GeneLoc Exon Structure for
ZNF541
ECgene alternative splicing isoforms for
ZNF541

Expression for ZNF541 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZNF541 Gene

mRNA differential expression in normal tissues according to GTEx for ZNF541 Gene

This gene is overexpressed in Testis (x30.1).

Protein differential expression in normal tissues from HIPED for ZNF541 Gene

This gene is overexpressed in Pancreatic juice (40.0) and Heart (27.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for ZNF541 Gene



Protein tissue co-expression partners for ZNF541 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ZNF541 Gene:

ZNF541

SOURCE GeneReport for Unigene cluster for ZNF541 Gene:

Hs.14161
genes like me logo Genes that share expression patterns with ZNF541: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZNF541 Gene

Orthologs for ZNF541 Gene

This gene was present in the common ancestor of animals.

Orthologs for ZNF541 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ZNF541 33 34
  • 99.23 (n)
dog
(Canis familiaris)
Mammalia ZNF541 33 34
  • 84.17 (n)
cow
(Bos Taurus)
Mammalia ZNF541 33 34
  • 81.68 (n)
rat
(Rattus norvegicus)
Mammalia Zfp541 33
  • 79.77 (n)
mouse
(Mus musculus)
Mammalia Zfp541 33 16 34
  • 77.94 (n)
oppossum
(Monodelphis domestica)
Mammalia ZNF541 34
  • 71 (a)
OneToOne
chicken
(Gallus gallus)
Aves ZNF541 34
  • 33 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia ZNF541 34
  • 41 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii ZNF541 34
  • 22 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG16779 34
  • 6 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea saeg-1 34
  • 11 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 24 (a)
OneToMany
Species where no ortholog for ZNF541 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for ZNF541 Gene

ENSEMBL:
Gene Tree for ZNF541 (if available)
TreeFam:
Gene Tree for ZNF541 (if available)

Paralogs for ZNF541 Gene

Paralogs for ZNF541 Gene

(14) SIMAP similar genes for ZNF541 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with ZNF541: view

Variants for ZNF541 Gene

Sequence variations from dbSNP and Humsavar for ZNF541 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
VAR_035717 A breast cancer sample
rs386834267 Uncertain significance 47,544,921(-) TCGCC(A/G)CTCTT intron-variant, nc-transcript-variant, reference, synonymous-codon
rs1000016070 -- 47,542,841(+) CTCGG(A/G)GGCTG intron-variant
rs1000097108 -- 47,547,629(+) GGTGT(C/G)GGTGA intron-variant
rs1000200464 -- 47,558,358(+) TTGCA(G/T)TGAGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ZNF541 Gene

Variant ID Type Subtype PubMed ID
esv2758765 CNV loss 17122850
nsv1056887 CNV gain 25217958
nsv1131434 CNV deletion 24896259
nsv428366 CNV loss 18775914
nsv579888 CNV gain 21841781

Variation tolerance for ZNF541 Gene

Gene Damage Index Score: 8.75; 86.66% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ZNF541 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZNF541

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZNF541 Gene

Disorders for ZNF541 Gene

Relevant External Links for ZNF541

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ZNF541

No disorders were found for ZNF541 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZNF541 Gene

Publications for ZNF541 Gene

  1. Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S … Poustka A (Genome research 2001) 2 3 4 60
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  3. 19q13.32 microdeletion syndrome: three new cases. (PMID: 25230004) Castillo A … Graham JM (European journal of medical genetics 2014) 3 60
  4. Nuclear cGMP-dependent kinase regulates gene expression via activity-dependent recruitment of a conserved histone deacetylase complex. (PMID: 21573134) Hao Y … Mak HY (PLoS genetics 2011) 4 60
  5. The consensus coding sequences of human breast and colorectal cancers. (PMID: 16959974) Sjöblom T … Velculescu VE (Science (New York, N.Y.) 2006) 4 60

Products for ZNF541 Gene

Sources for ZNF541 Gene

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