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Aliases for PUM3 Gene

Aliases for PUM3 Gene

  • Pumilio RNA Binding Family Member 3 2 3 5
  • Minor Histocompatibility Antigen HA-8 2 3 4
  • KIAA0020 2 3 4
  • HBV X-Transactivated Gene 5 Protein 3 4
  • HBV XAg-Transactivated Protein 5 3 4
  • HLA-HA8 3 4
  • PUF-A 3 4
  • XTP5 3 4
  • Protein 5 Transactivated By Hepatitis B Virus X Antigen (HBxAg) 3
  • Penguin Homolog (Drosophila) 2
  • Pumilio Homolog 3 3
  • Penguin Homolog 3
  • CPERP-C 4
  • HA-8 3
  • PUF6 3
  • PEN 3

External Ids for PUM3 Gene

Previous HGNC Symbols for PUM3 Gene

  • KIAA0020

Summaries for PUM3 Gene

GeneCards Summary for PUM3 Gene

PUM3 (Pumilio RNA Binding Family Member 3) is a Protein Coding gene. Diseases associated with PUM3 include Teeth Hard Tissue Disease.

UniProtKB/Swiss-Prot for PUM3 Gene

  • Inhibits the poly(ADP-ribosyl)ation activity of PARP1 and the degradation of PARP1 by CASP3 following genotoxic stress (PubMed:21266351). Binds to double-stranded RNA or DNA without sequence specificity (PubMed:25512524). Involved in development of the eye and of primordial germ cells (By similarity).

Gene Wiki entry for PUM3 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PUM3 Gene

Genomics for PUM3 Gene

Regulatory Elements for PUM3 Gene

Enhancers for PUM3 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
GH09G002013 2 FANTOM5 Ensembl ENCODE dbSUPER 21.9 +827.2 827227 7.1 HDGF FOXA2 PKNOX1 CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZBTB7B YY1 PUM3 ENSG00000236199 SMARCA2 GC09P002022
GH09G002842 1.1 ENCODE 16.1 +0.2 158 3.3 HDGF CREB3L1 ARNT WRNIP1 ARID4B SIN3A DMAP1 YY1 ZNF766 ZNF143 PUM3 GC09M002760
GH09G003523 1.4 ENCODE dbSUPER 12.5 -682.5 -682451 6.4 FOXA2 PKNOX1 CREB3L1 MLX WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 PUM3 RFX3 RFX3-AS1
GH09G002815 1.1 Ensembl ENCODE dbSUPER 15.8 +26.7 26724 4.4 BHLHE40 REST EBF1 TBX21 IKZF2 MAFK PUM3 GC09M002760
GH09G002807 1.3 Ensembl ENCODE dbSUPER 11.5 +34.4 34378 4.4 FOXA2 TEAD4 SIN3A RBBP5 ZKSCAN1 RARA TEAD3 POLR2A NR2F6 ZNF652 PUM3 GC09M002760
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PUM3 on UCSC Golden Path with GeneCards custom track

Promoters for PUM3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000232564 41 2401 HDGF CREB3L1 ARNT WRNIP1 ARID4B SIN3A DMAP1 YY1 ZNF766 ZNF143

Genomic Location for PUM3 Gene

Chromosome:
9
Start:
2,720,469 bp from pter
End:
2,844,241 bp from pter
Size:
123,773 bases
Orientation:
Minus strand

Genomic View for PUM3 Gene

Genes around PUM3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PUM3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PUM3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PUM3 Gene

Proteins for PUM3 Gene

  • Protein details for PUM3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q15397-PUM3_HUMAN
    Recommended name:
    Pumilio homolog 3
    Protein Accession:
    Q15397
    Secondary Accessions:
    • A8K804
    • Q547G7
    • Q5SZY9
    • Q6IB47
    • Q96B27
    • Q96L78
    • Q96L79
    • Q96L80

    Protein attributes for PUM3 Gene

    Size:
    648 amino acids
    Molecular mass:
    73584 Da
    Quaternary structure:
    • Interacts with PARP1 (via catalytic domain).
    SequenceCaution:
    • Sequence=BAA02808.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAI12924.2; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=CAI15123.2; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PUM3 Gene

neXtProt entry for PUM3 Gene

Post-translational modifications for PUM3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for PUM3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PUM3 Gene

Domains & Families for PUM3 Gene

Gene Families for PUM3 Gene

Protein Domains for PUM3 Gene

Suggested Antigen Peptide Sequences for PUM3 Gene

Graphical View of Domain Structure for InterPro Entry

Q15397

UniProtKB/Swiss-Prot:

PUM3_HUMAN :
  • The HA-8 region can be cleaved and exposed at the cell surface where it plays a role as a minor histocompatibility HLA-A*0201-restricted antigen.
Domain:
  • The HA-8 region can be cleaved and exposed at the cell surface where it plays a role as a minor histocompatibility HLA-A*0201-restricted antigen.
  • A 90 degree bend between Pumilio repeats 3 and 4 gives rise to a L-shaped protein.
genes like me logo Genes that share domains with PUM3: view

Function for PUM3 Gene

Molecular function for PUM3 Gene

UniProtKB/Swiss-Prot Function:
Inhibits the poly(ADP-ribosyl)ation activity of PARP1 and the degradation of PARP1 by CASP3 following genotoxic stress (PubMed:21266351). Binds to double-stranded RNA or DNA without sequence specificity (PubMed:25512524). Involved in development of the eye and of primordial germ cells (By similarity).

Gene Ontology (GO) - Molecular Function for PUM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003723 RNA binding IDA 22658674
GO:0003729 mRNA binding IBA --
GO:0005515 protein binding IPI 21266351
genes like me logo Genes that share ontologies with PUM3: view
genes like me logo Genes that share phenotypes with PUM3: view

Animal Model Products

miRNA for PUM3 Gene

miRTarBase miRNAs that target PUM3

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PUM3 Gene

Localization for PUM3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PUM3 Gene

Nucleus, nucleolus. Nucleus, nucleoplasm. Chromosome. Note=Localizes predominantly in the nucleolus with minor punctate signals in the nucleoplasm. {ECO:0000269 PubMed:21266351}.

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 PUM3 gene
Compartment Confidence
nucleus 5
endoplasmic reticulum 5
cytosol 2

Gene Ontology (GO) - Cellular Components for PUM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IEA,IDA 21266351
GO:0005694 chromosome IDA,IEA 20813266
GO:0005730 nucleolus IEA,IDA 21266351
GO:0005783 endoplasmic reticulum IDA 10942595
genes like me logo Genes that share ontologies with PUM3: view

Pathways & Interactions for PUM3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for PUM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006417 regulation of translation IBA --
GO:0010835 regulation of protein ADP-ribosylation IMP 21266351
genes like me logo Genes that share ontologies with PUM3: view

No data available for Pathways by source and SIGNOR curated interactions for PUM3 Gene

Drugs & Compounds for PUM3 Gene

No Compound Related Data Available

Transcripts for PUM3 Gene

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PUM3 Gene

No ASD Table

Relevant External Links for PUM3 Gene

GeneLoc Exon Structure for
PUM3
ECgene alternative splicing isoforms for
PUM3

Expression for PUM3 Gene

NURSA nuclear receptor signaling pathways regulating expression of PUM3 Gene:

PUM3

mRNA Expression by UniProt/SwissProt for PUM3 Gene:

Q15397-PUM3_HUMAN
Tissue specificity: Widely expressed.

Evidence on tissue expression from TISSUES for PUM3 Gene

  • Bone marrow(4.2)

Primer Products

No data available for mRNA expression in normal human tissues , 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 , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for PUM3 Gene

Orthologs for PUM3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for PUM3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia KIAA0020 35 34
  • 99.43 (n)
OneToOne
dog
(Canis familiaris)
Mammalia KIAA0020 34 35
  • 90.06 (n)
cow
(Bos Taurus)
Mammalia KIAA0020 34 35
  • 89.85 (n)
mouse
(Mus musculus)
Mammalia D19Bwg1357e 35 34
  • 85.99 (n)
OneToOne
Pum3 16
platypus
(Ornithorhynchus anatinus)
Mammalia KIAA0020 35
  • 79 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia KIAA0020 35
  • 69 (a)
OneToOne
chicken
(Gallus gallus)
Aves KIAA0020 34 35
  • 72.11 (n)
lizard
(Anolis carolinensis)
Reptilia KIAA0020 35
  • 71 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia kiaa0020 34
  • 68.14 (n)
Str.15416 34
African clawed frog
(Xenopus laevis)
Amphibia LOC398471 34
zebrafish
(Danio rerio)
Actinopterygii im:7148292 34 35
  • 65.3 (n)
sbcb379 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.952 34
fruit fly
(Drosophila melanogaster)
Insecta pen 35
  • 25 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea puf-12 34 35
  • 47.89 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PUF6 35
  • 21 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons PUM24 34
  • 45.53 (n)
rice
(Oryza sativa)
Liliopsida Os03g0831100 34
  • 43.72 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2908 35
  • 40 (a)
OneToOne
Species where no ortholog for PUM3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • rat (Rattus norvegicus)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for PUM3 Gene

ENSEMBL:
Gene Tree for PUM3 (if available)
TreeFam:
Gene Tree for PUM3 (if available)

Paralogs for PUM3 Gene

Pseudogenes.org Pseudogenes for PUM3 Gene

genes like me logo Genes that share paralogs with PUM3: view

No data available for Paralogs for PUM3 Gene

Variants for PUM3 Gene

Polymorphic Variants from UniProtKB/Swiss-Prot for PUM3 Gene

PUM3_HUMAN-Q15397
The following alleles of HA-8 are known: HA-8R, HA-8P, HA-8PL, of which only HA-8R leads to specific cytotoxic T lymphocyte (CTL) recognition. The lack of CTL recognition of cells expressing HA-8P may be due to impaired transport associated with antigen processing. The sequence shown is that of HA-8R.

Sequence variations from dbSNP and Humsavar for PUM3 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type
rs1000041588 -- 2,840,647(+) AATAC(C/T)ACTGT intron-variant
rs1000057532 -- 2,835,835(+) TCCCA(C/T)TTTGA intron-variant
rs1000071404 -- 2,804,641(+) CACGG(A/G)AAAAA intron-variant
rs1000100594 -- 2,837,806(+) TGACT(C/T)CTTGA intron-variant
rs1000134480 -- 2,824,130(+) AAGGT(C/T)TAAAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PUM3 Gene

Variant ID Type Subtype PubMed ID
esv2594391 CNV insertion 19546169
esv3619298 CNV gain 21293372
nsv1032474 CNV loss 25217958
nsv1142547 CNV tandem duplication 24896259
nsv474973 CNV novel sequence insertion 20440878

Variation tolerance for PUM3 Gene

Residual Variation Intolerance Score: 97.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.03; 75.03% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PUM3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PUM3

Disorders for PUM3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for PUM3 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
teeth hard tissue disease
- elite association - COSMIC cancer census association via MalaCards
Search PUM3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for PUM3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PUM3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PUM3
genes like me logo Genes that share disorders with PUM3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PUM3 Gene

Publications for PUM3 Gene

  1. hPuf-A/KIAA0020 modulates PARP-1 cleavage upon genotoxic stress. (PMID: 21266351) Chang H.Y. … Chang M.S. (Cancer Res. 2011) 2 3 4 64
  2. Prediction of the coding sequences of unidentified human genes. I. The coding sequences of 40 new genes (KIAA0001-KIAA0040) deduced by analysis of randomly sampled cDNA clones from human immature myeloid cell line KG-1. (PMID: 7584026) Nomura N. … Tabata S. (DNA Res. 1994) 2 3 4 64
  3. A divergent Pumilio repeat protein family for pre-rRNA processing and mRNA localization. (PMID: 25512524) Qiu C. … Hall T.M. (Proc. Natl. Acad. Sci. U.S.A. 2014) 3 4 64
  4. The protein composition of mitotic chromosomes determined using multiclassifier combinatorial proteomics. (PMID: 20813266) Ohta S. … Rappsilber J. (Cell 2010) 3 4 64
  5. DNA sequence and analysis of human chromosome 9. (PMID: 15164053) Humphray S.J. … Dunham I. (Nature 2004) 3 4 64

Products for PUM3 Gene

Sources for PUM3 Gene

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