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Aliases for PHF13 Gene

Aliases for PHF13 Gene

  • PHD Finger Protein 13 2 3
  • Survival Time-Associated PHD Finger Protein In Ovarian Cancer 1 3 4
  • SPOC1 3 4
  • Survival Time-Associated PHD Protein In Ovarian Cancer 3
  • PHD Zinc Finger Protein PHF5 3
  • PHF5 3

External Ids for PHF13 Gene

Previous GeneCards Identifiers for PHF13 Gene

  • GC01P006270
  • GC01P006383
  • GC01P006608
  • GC01P006596
  • GC01P006673
  • GC01P005821

Summaries for PHF13 Gene

GeneCards Summary for PHF13 Gene

PHF13 (PHD Finger Protein 13) is a Protein Coding gene. GO annotations related to this gene include chromatin binding and methylated histone binding. An important paralog of this gene is PHF23.

UniProtKB/Swiss-Prot for PHF13 Gene

  • Modulates chromatin structure. Required for normal chromosome condensation during the early stages of mitosis. Required for normal chromosome separation during mitosis.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PHF13 Gene

Genomics for PHF13 Gene

Regulatory Elements for PHF13 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for PHF13 Gene

Chromosome:
1
Start:
6,613,685 bp from pter
End:
6,624,033 bp from pter
Size:
10,349 bases
Orientation:
Plus strand

Genomic View for PHF13 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for PHF13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PHF13 Gene

Proteins for PHF13 Gene

  • Protein details for PHF13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86YI8-PHF13_HUMAN
    Recommended name:
    PHD finger protein 13
    Protein Accession:
    Q86YI8
    Secondary Accessions:
    • B3KUQ7
    • Q59FB6
    • Q5TH65
    • Q8N551
    • Q9UJP2

    Protein attributes for PHF13 Gene

    Size:
    300 amino acids
    Molecular mass:
    33582 Da
    Quaternary structure:
    • Interacts with histone H3 that is trimethylated at Lys-4 (H3K4me3). Interacts with GSK3B.
    SequenceCaution:
    • Sequence=AAH32792.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=BAD92781.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PHF13 Gene

neXtProt entry for PHF13 Gene

Proteomics data for PHF13 Gene at MOPED

Post-translational modifications for PHF13 Gene

  • Subject to proteasomal degradation. Stable when bound to chromatin. The soluble form is rapidly degraded
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for PHF13 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PHF13 Gene

Domains & Families for PHF13 Gene

Gene Families for PHF13 Gene

Protein Domains for PHF13 Gene

Suggested Antigen Peptide Sequences for PHF13 Gene

Graphical View of Domain Structure for InterPro Entry

Q86YI8

UniProtKB/Swiss-Prot:

PHF13_HUMAN :
  • Contains 1 PHD-type zinc finger.
Similarity:
  • Contains 1 PHD-type zinc finger.
genes like me logo Genes that share domains with PHF13: view

Function for PHF13 Gene

Molecular function for PHF13 Gene

UniProtKB/Swiss-Prot Function:
Modulates chromatin structure. Required for normal chromosome condensation during the early stages of mitosis. Required for normal chromosome separation during mitosis.
UniProtKB/Swiss-Prot Induction:
Expression levels are tightly regulated during the cell cycle. Strongly up-regulated during late G2 phase and M phase of the mitotic cell cycle. Down-regulated at the G1-S phase transition of the cell cycle.

Gene Ontology (GO) - Molecular Function for PHF13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003682 chromatin binding IDA 19638409
GO:0005515 protein binding --
GO:0008270 zinc ion binding IEA --
GO:0035064 methylated histone binding NAS 19638409
genes like me logo Genes that share ontologies with PHF13: view
genes like me logo Genes that share phenotypes with PHF13: view

Animal Model Products

miRNA for PHF13 Gene

miRTarBase miRNAs that target PHF13

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for PHF13

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targets and HOMER Transcription for PHF13 Gene

Localization for PHF13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PHF13 Gene

Nucleus. Nucleus, nucleoplasm. Note=Predominantly bound to chromatin, but a minor proportion is also detected in the nucleoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PHF13 Gene COMPARTMENTS Subcellular localization image for PHF13 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for PHF13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 19638409
GO:0005654 nucleoplasm IEA --
genes like me logo Genes that share ontologies with PHF13: view

Pathways & Interactions for PHF13 Gene

SuperPathways for PHF13 Gene

No Data Available

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays
    • Epigenetic Chromatin Remodeling Factors in human,mouse,rat

Interacting Proteins for PHF13 Gene

STRING Interaction Network Preview (showing 2 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000366876%0d%0a9606.ENSP00000344818%0d%0a9606.ENSP00000343890%0d%0a
Selected Interacting proteins: ENSP00000366876 for PHF13 Gene via STRING

Gene Ontology (GO) - Biological Process for PHF13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000278 mitotic cell cycle IMP 19638409
GO:0007059 chromosome segregation IMP 19638409
GO:0007076 mitotic chromosome condensation IMP 19638409
GO:0016568 chromatin modification IEA --
GO:0051301 cell division IEA --
genes like me logo Genes that share ontologies with PHF13: view

No data available for Pathways by source and SIGNOR curated interactions for PHF13 Gene

Drugs & Compounds for PHF13 Gene

No Compound Related Data Available

Transcripts for PHF13 Gene

mRNA/cDNA for PHF13 Gene

Unigene Clusters for PHF13 Gene

PHD finger protein 13:
Representative Sequences:

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for PHF13

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PHF13 Gene

ExUns: 1 ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5 ^ 6
SP1: -
SP2: - - - - - -
SP3:
SP4:

Relevant External Links for PHF13 Gene

GeneLoc Exon Structure for
PHF13
ECgene alternative splicing isoforms for
PHF13

Expression for PHF13 Gene

mRNA expression in normal human tissues for PHF13 Gene

SOURCE GeneReport for Unigene cluster for PHF13 Gene Hs.516079

genes like me logo Genes that share expression patterns with PHF13: view

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for PHF13 Gene

Orthologs for PHF13 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PHF13 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia PHF13 35
  • 89.33 (n)
  • 95 (a)
PHF13 36
  • 90 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PHF13 35
  • 90.78 (n)
  • 96 (a)
-- 36
  • 9 (a)
ManyToMany
mouse
(Mus musculus)
Mammalia Phf13 35
  • 88.4 (n)
  • 93.58 (a)
Phf13 16
Phf13 36
  • 94 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia PHF13 35
  • 99.67 (n)
  • 100 (a)
PHF13 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Phf13 35
  • 88.51 (n)
  • 94.26 (a)
oppossum
(Monodelphis domestica)
Mammalia PHF13 36
  • 87 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PHF13 36
  • 85 (a)
OneToOne
chicken
(Gallus gallus)
Aves PHF13 35
  • 73.38 (n)
  • 71.58 (a)
PHF13 36
  • 69 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 35 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia phf13 35
  • 64.88 (n)
  • 65.1 (a)
zebrafish
(Danio rerio)
Actinopterygii LOC100537300 35
  • 58.14 (n)
  • 57.91 (a)
PHF13 36
  • 52 (a)
OneToOne
Species with no ortholog for PHF13:
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PHF13 Gene

ENSEMBL:
Gene Tree for PHF13 (if available)
TreeFam:
Gene Tree for PHF13 (if available)

Paralogs for PHF13 Gene

Paralogs for PHF13 Gene

genes like me logo Genes that share paralogs with PHF13: view

Variants for PHF13 Gene

Sequence variations from dbSNP and Humsavar for PHF13 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs200435 -- 6,616,868(+) TCTTC(C/T)GAGTT intron-variant
rs200436 -- 6,615,429(+) AGGAG(A/G)AGGTT intron-variant, upstream-variant-2KB
rs1709853 -- 6,617,370(+) cgtga(C/G)gtacc intron-variant
rs1737377 -- 6,617,371(-) cggta(C/G)ctcac intron-variant
rs2072948 -- 6,619,788(-) CAAAG(A/G)TGGCA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PHF13 Gene

Variant ID Type Subtype PubMed ID
dgv129n71 CNV Loss 21882294
nsv871348 CNV Gain 21882294
dgv130n71 CNV Loss 21882294
nsv826253 CNV Gain 20364138

Variation tolerance for PHF13 Gene

Residual Variation Intolerance Score: 20.81% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.46; 28.61% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PHF13 Gene

HapMap Linkage Disequilibrium report
PHF13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PHF13 Gene

Disorders for PHF13 Gene

Relevant External Links for PHF13

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PHF13
genes like me logo Genes that share disorders with PHF13: view

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PHF13 Gene

Publications for PHF13 Gene

  1. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 67
  2. SPOC1-mediated antiviral host cell response is antagonized early in human adenovirus type 5 infection. (PMID: 24278021) Schreiner S. … Dobner T. (PLoS Pathog. 2013) 67
  3. Toward an understanding of the protein interaction network of the human liver. (PMID: 21988832) Wang J. … Yang X. (Mol. Syst. Biol. 2011) 67
  4. SPOC1: a novel PHD-containing protein modulating chromatin structure and mitotic chromosome condensation. (PMID: 19638409) Kinkley S. … Will H. (J. Cell Sci. 2009) 67
  5. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PMID: 17207965) Lamesch P. … Vidal M. (Genomics 2007) 67

Products for PHF13 Gene

Sources for PHF13 Gene

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