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Aliases for PHTF1 Gene

Aliases for PHTF1 Gene

  • Putative Homeodomain Transcription Factor 1 2 3 5
  • PHTF 3 4

External Ids for PHTF1 Gene

Previous HGNC Symbols for PHTF1 Gene

  • PHTF

Previous GeneCards Identifiers for PHTF1 Gene

  • GC01M114653
  • GC01M113122
  • GC01M113339
  • GC01M113538
  • GC01M113951
  • GC01M114240
  • GC01M112097

Summaries for PHTF1 Gene

GeneCards Summary for PHTF1 Gene

PHTF1 (Putative Homeodomain Transcription Factor 1) is a Protein Coding gene. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding. An important paralog of this gene is PHTF2.

UniProtKB/Swiss-Prot for PHTF1 Gene

  • May play a role in transcription regulation.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PHTF1 Gene

Genomics for PHTF1 Gene

Regulatory Elements for PHTF1 Gene

Enhancers for PHTF1 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
GH01F113803 1.1 Ensembl ENCODE 18.9 -45.0 -45009 2.2 HDGF PKNOX1 ARNT MLX CREB3L1 ZFP64 ARID4B SIN3A DMAP1 FEZF1 PHTF1 LRIG2 TRIM33 SIKE1 LOC100421402 AP4B1 DCLRE1B HIPK1 HIPK1-AS1 AP4B1-AS1
GH01F113869 0.2 ENCODE 17.8 -113.3 -113287 7.6 HDGF PKNOX1 ATF1 YBX1 YY1 ZNF121 GATA2 CBX5 ZNF143 ZNF207 RSBN1 AP4B1 PHTF1 DCLRE1B ENSG00000231128 HIPK1 HIPK1-AS1 LOC100421402 PTPN22 TRIM33
GH01F113878 1.1 Ensembl ENCODE 16.5 -120.5 -120544 3.2 HDGF TBP ASH2L ZBTB40 ZNF664 NFYB MTA2 HLF TRIM22 CEBPB AP4B1 PHTF1 DCLRE1B HIPK1 HIPK1-AS1 OLFML3 MAGI3 BCL2L15 PTPN22
GH01F113779 1.7 FANTOM5 Ensembl ENCODE 14.4 -23.2 -23210 7.0 HDGF HDAC1 PKNOX1 ATF1 ARNT FEZF1 ELK1 ZNF366 ETV6 CREM RSBN1 PHTF1 ENSG00000231128 AP4B1 LOC100421402 MAGI3 PTPN22 HIPK1 PIR59903
GH01F113808 0.2 ENCODE 12.1 -48.9 -48942 0.0 CBX3 ZNF146 HLF ZNF580 ZMYM3 KDM1A TRIM28 PHTF1 ENSG00000231128 PIR59903
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around PHTF1 on UCSC Golden Path with GeneCards custom track

Promoters for PHTF1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

Genomic Location for PHTF1 Gene

113,696,831 bp from pter
113,759,892 bp from pter
63,062 bases
Minus strand

Genomic View for PHTF1 Gene

Genes around PHTF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PHTF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PHTF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PHTF1 Gene

Proteins for PHTF1 Gene

  • Protein details for PHTF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Putative homeodomain transcription factor 1
    Protein Accession:
    Secondary Accessions:
    • Q5VWP7
    • Q5VWP8
    • Q9BUP2
    • Q9H1X8

    Protein attributes for PHTF1 Gene

    762 amino acids
    Molecular mass:
    87252 Da
    Quaternary structure:
    • Interacts with FEM1B.

    Alternative splice isoforms for PHTF1 Gene


neXtProt entry for PHTF1 Gene

Post-translational modifications for PHTF1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for PHTF1 Gene

Domains & Families for PHTF1 Gene

No data available for Gene Families and UniProtKB/Swiss-Prot for PHTF1 Gene

Function for PHTF1 Gene

Molecular function for PHTF1 Gene

GENATLAS Biochemistry:
putative homeo domain transcription factor
UniProtKB/Swiss-Prot Function:
May play a role in transcription regulation.

Gene Ontology (GO) - Molecular Function for PHTF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003700 transcription factor activity, sequence-specific DNA binding TAS 10729229
genes like me logo Genes that share ontologies with PHTF1: view
genes like me logo Genes that share phenotypes with PHTF1: view

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PHTF1 Gene

Localization for PHTF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PHTF1 Gene

Subcellular locations from

Jensen Localization Image for PHTF1 Gene COMPARTMENTS Subcellular localization image for PHTF1 gene
Compartment Confidence
nucleus 5
endoplasmic reticulum 3
plasma membrane 3
cytosol 2

Gene Ontology (GO) - Cellular Components for PHTF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005730 nucleolus IDA --
GO:0005737 cytoplasm IDA --
GO:0005783 endoplasmic reticulum IEA --
GO:0005801 cis-Golgi network IEA --
genes like me logo Genes that share ontologies with PHTF1: view

Pathways & Interactions for PHTF1 Gene

SuperPathways for PHTF1 Gene

No Data Available

Interacting Proteins for PHTF1 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
Selected Interacting proteins: Q9UMS5-PHTF1_HUMAN ENSP00000358617 for PHTF1 Gene via IID STRING

Gene Ontology (GO) - Biological Process for PHTF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with PHTF1: view

No data available for Pathways by source and SIGNOR curated interactions for PHTF1 Gene

Transcripts for PHTF1 Gene

Unigene Clusters for PHTF1 Gene

Putative homeodomain transcription factor 1:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PHTF1 Gene

No ASD Table

Relevant External Links for PHTF1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PHTF1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PHTF1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PHTF1 Gene

This gene is overexpressed in Brain - Cerebellum (x4.6) and Brain - Cerebellar Hemisphere (x4.6).

Protein differential expression in normal tissues from HIPED for PHTF1 Gene

This gene is overexpressed in Serum (57.7) and Plasma (7.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for PHTF1 Gene

Protein tissue co-expression partners for PHTF1 Gene

NURSA nuclear receptor signaling pathways regulating expression of PHTF1 Gene:


SOURCE GeneReport for Unigene cluster for PHTF1 Gene:


mRNA Expression by UniProt/SwissProt for PHTF1 Gene:

Tissue specificity: Widely expressed with highest levels in testis.
genes like me logo Genes that share expression patterns with PHTF1: view

Primer Products

Orthologs for PHTF1 Gene

This gene was present in the common ancestor of animals.

Orthologs for PHTF1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia PHTF1 34 35
  • 99.83 (n)
(Canis familiaris)
Mammalia PHTF1 34 35
  • 93.39 (n)
(Bos Taurus)
Mammalia PHTF1 34 35
  • 91.95 (n)
(Mus musculus)
Mammalia Phtf1 34 16 35
  • 90.1 (n)
(Rattus norvegicus)
Mammalia Phtf1 34
  • 90.03 (n)
(Monodelphis domestica)
Mammalia PHTF1 35
  • 83 (a)
(Ornithorhynchus anatinus)
Mammalia PHTF1 35
  • 79 (a)
(Gallus gallus)
Aves PHTF1 34 35
  • 70.71 (n)
(Anolis carolinensis)
Reptilia PHTF1 35
  • 71 (a)
(Danio rerio)
Actinopterygii zgc:175264 34
  • 58.94 (n)
PHTF1 35
  • 55 (a)
fruit fly
(Drosophila melanogaster)
Insecta phtf 36 35
  • 41 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 58 (a)
Species where no ortholog for PHTF1 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)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for PHTF1 Gene

Gene Tree for PHTF1 (if available)
Gene Tree for PHTF1 (if available)

Paralogs for PHTF1 Gene

Paralogs for PHTF1 Gene

(2) SIMAP similar genes for PHTF1 Gene using alignment to 6 proteins:

genes like me logo Genes that share paralogs with PHTF1: view

Variants for PHTF1 Gene

Sequence variations from dbSNP and Humsavar for PHTF1 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs10644377 -- 113,735,395(+) AAAAA(-/A)GGCAG intron-variant
rs10858015 -- 113,725,329(+) TACTA(C/T)AGATA intron-variant
rs10858016 -- 113,727,355(+) CAAGG(A/G)GTTTT intron-variant
rs10858017 -- 113,745,280(+) TTTAA(A/G)TATGA intron-variant
rs11102675 -- 113,701,867(+) attca(A/G)aagtg intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PHTF1 Gene

Variant ID Type Subtype PubMed ID
esv2179916 CNV deletion 18987734
esv23869 CNV loss 19812545
esv3587239 CNV loss 21293372
esv3587240 CNV loss 21293372
esv3587245 CNV loss 21293372
esv3587246 CNV loss 21293372
nsv831093 CNV loss 17160897

Variation tolerance for PHTF1 Gene

Residual Variation Intolerance Score: 32.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.30; 41.09% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PHTF1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PHTF1 Gene

Disorders for PHTF1 Gene

Relevant External Links for PHTF1

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for PHTF1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PHTF1 Gene

Publications for PHTF1 Gene

  1. PHTF, a novel atypical homeobox gene on chromosome 1p13, is evolutionarily conserved. (PMID: 10395808) Raich N. … Beaupain D. (Genomics 1999) 2 3 4 64
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  3. PTPN22 Trp620 explains the association of chromosome 1p13 with type 1 diabetes and shows a statistical interaction with HLA class II genotypes. (PMID: 18305142) Smyth D.J. … Todd J.A. (Diabetes 2008) 3 46 64
  4. Robust associations of four new chromosome regions from genome-wide analyses of type 1 diabetes. (PMID: 17554260) Todd J.A. … Clayton D.G. (Nat. Genet. 2007) 3 46 64
  5. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4 64

Products for PHTF1 Gene

Sources for PHTF1 Gene

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