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Aliases for PAPD7 Gene

Aliases for PAPD7 Gene

  • Poly(A) RNA Polymerase D7, Non-Canonical 2 3 5
  • Topoisomerase-Related Function Protein 4-1 2 3 4
  • TRAMP-Like Complex Polyadenylate Polymerase 3 4
  • PAP-Associated Domain-Containing Protein 7 3 4
  • PAP Associated Domain Containing 7 2 3
  • Polymerase (DNA Directed) Sigma 2 3
  • Terminal Uridylyltransferase 5 3 4
  • DNA Polymerase Kappa 2 3
  • DNA Polymerase Sigma 3 4
  • TUTase 5 3 4
  • TUTase5 2 3
  • TRF4-1 3 4
  • LAK-1 3 4
  • POLS 3 4
  • TRF4 3 4
  • Non-Canonical Poly(A) RNA Polymerase PAPD7 3
  • Polymerase (DNA-Directed) Sigma 2
  • EC 2.7.7.19 4
  • TRF41 3
  • LAK1 3
  • POLK 3

External Ids for PAPD7 Gene

Previous HGNC Symbols for PAPD7 Gene

  • POLS

Summaries for PAPD7 Gene

Entrez Gene Summary for PAPD7 Gene

  • The protein encoded by this gene is a DNA polymerase that is likely involved in DNA repair. In addition, the encoded protein may be required for sister chromatid adhesion. Alternatively spliced transcript variants that encode different isoforms have been described. [provided by RefSeq, Jan 2010]

GeneCards Summary for PAPD7 Gene

PAPD7 (Poly(A) RNA Polymerase D7, Non-Canonical) is a Protein Coding gene. Among its related pathways are Oncogenic MAPK signaling and HIV Life Cycle. Gene Ontology (GO) annotations related to this gene include DNA-directed DNA polymerase activity and polynucleotide adenylyltransferase activity. An important paralog of this gene is PAPD5.

UniProtKB/Swiss-Prot for PAPD7 Gene

  • Catalytic subunit of a TRAMP-like complex which has a poly(A) RNA polymerase activity and is involved in a post-transcriptional quality control mechanism. Polyadenylation with short oligo(A) tails is required for the degradative activity of the exosome on several of its nuclear RNA substrates. Has no terminal uridylyltransferase activity, and does not play a role in replication-dependent histone mRNA degradation via uridylation.

Additional gene information for PAPD7 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PAPD7 Gene

Genomics for PAPD7 Gene

GeneHancer (GH) Regulatory Elements for PAPD7 Gene

Promoters and enhancers for PAPD7 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05I006711 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 590.9 +0.9 936 5.1 HDGF SMAD1 FOXA2 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 PAPD7 LINC02102 NSUN2 LINC02145 SRD5A1 PIR57279
GH05I006716 Promoter 0.6 EPDnew 550.8 +3.8 3820 0.1 GLIS2 PAPD7 PIR57279
GH05I006631 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 24.1 -77.9 -77870 7.9 HDGF CLOCK SMAD1 FOXA2 ARNT ARID4B SIN3A DMAP1 POLR2B ZNF213 NSUN2 SRD5A1 LINC02102 LINC02145 PAPD7 LINC01018 MED10 GC05M006647
GH05I006376 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 22.7 -334.8 -334775 2.5 HDGF SMAD1 ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B E2F8 DEK MED10 LINC02145 PAPD7 LINC02102 NSUN2 ICE1 LOC105374638
GH05I006449 Enhancer 0.8 FANTOM5 42.8 -263.0 -262963 0.5 ZNF266 ZNF76 CEBPG GLI4 ZIC2 ZNF335 ZNF791 GLIS2 ZBTB48 PATZ1 PAPD7 NSUN2 UBE2QL1 LOC105374639
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around PAPD7 on UCSC Golden Path with GeneCards custom track

Genomic Locations for PAPD7 Gene

Genomic Locations for PAPD7 Gene
chr5:6,713,007-6,757,048
(GRCh38/hg38)
Size:
44,042 bases
Orientation:
Plus strand
chr5:6,714,718-6,757,161
(GRCh37/hg19)

Genomic View for PAPD7 Gene

Genes around PAPD7 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PAPD7 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PAPD7 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PAPD7 Gene

Proteins for PAPD7 Gene

  • Protein details for PAPD7 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5XG87-PAPD7_HUMAN
    Recommended name:
    Non-canonical poly(A) RNA polymerase PAPD7
    Protein Accession:
    Q5XG87
    Secondary Accessions:
    • A8K1E2
    • M1JCE6
    • O43289
    • Q17RZ1
    • Q9Y6C1

    Protein attributes for PAPD7 Gene

    Size:
    772 amino acids
    Molecular mass:
    82360 Da
    Cofactor:
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420; Name=Mn(2+); Xref=ChEBI:CHEBI:29035;
    Quaternary structure:
    • Component of a nuclear TRAMP-like complex, an ATP-dependent exosome regulatory complex consisting of a helicase (SKIV2L2/MTR4), an oligadenylate polymerase (PAPD5 or PAPD7), and a substrate specific RNA-binding factor (ZCCHC7 or ZCCHC8). Several TRAMP-like complexes exist with specific compositions and are associated with nuclear, or nucleolar RNA exosomes.
    SequenceCaution:
    • Sequence=AAD45198.1; Type=Frameshift; Positions=474; Evidence={ECO:0000305};

    Alternative splice isoforms for PAPD7 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PAPD7 Gene

Post-translational modifications for PAPD7 Gene

No Post-translational modifications

No data available for DME Specific Peptides for PAPD7 Gene

Domains & Families for PAPD7 Gene

Gene Families for PAPD7 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins
  • Predicted membrane proteins

Suggested Antigen Peptide Sequences for PAPD7 Gene

Graphical View of Domain Structure for InterPro Entry

Q5XG87

UniProtKB/Swiss-Prot:

PAPD7_HUMAN :
  • Belongs to the DNA polymerase type-B-like family.
Family:
  • Belongs to the DNA polymerase type-B-like family.
genes like me logo Genes that share domains with PAPD7: view

Function for PAPD7 Gene

Molecular function for PAPD7 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
ATP + RNA(n) = diphosphate + RNA(n+1).
UniProtKB/Swiss-Prot Function:
Catalytic subunit of a TRAMP-like complex which has a poly(A) RNA polymerase activity and is involved in a post-transcriptional quality control mechanism. Polyadenylation with short oligo(A) tails is required for the degradative activity of the exosome on several of its nuclear RNA substrates. Has no terminal uridylyltransferase activity, and does not play a role in replication-dependent histone mRNA degradation via uridylation.

Enzyme Numbers (IUBMB) for PAPD7 Gene

Phenotypes From GWAS Catalog for PAPD7 Gene

Gene Ontology (GO) - Molecular Function for PAPD7 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004652 polynucleotide adenylyltransferase activity IEA --
GO:0005524 ATP binding IEA --
GO:0016740 transferase activity IEA --
GO:0016779 nucleotidyltransferase activity IEA --
GO:0043221 SMC family protein binding TAS 10066793
genes like me logo Genes that share ontologies with PAPD7: view
genes like me logo Genes that share phenotypes with PAPD7: view

Animal Model Products

CRISPR Products

miRNA for PAPD7 Gene

miRTarBase miRNAs that target PAPD7

Inhibitory RNA Products

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PAPD7 Gene

Localization for PAPD7 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PAPD7 Gene

Cytoplasm. Nucleus, nucleoplasm. Note=Excluded from nucleolus, weak staining detected in the cytoplasm.

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 PAPD7 gene
Compartment Confidence
nucleus 5
golgi apparatus 5
cytosol 2
extracellular 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (3)
  • Nuclear membrane (3)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PAPD7 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 10066793
GO:0005654 nucleoplasm IDA,IEA --
GO:0005737 cytoplasm IEA --
GO:0005794 Golgi apparatus IDA --
GO:0031965 nuclear membrane IDA --
genes like me logo Genes that share ontologies with PAPD7: view

Pathways & Interactions for PAPD7 Gene

genes like me logo Genes that share pathways with PAPD7: view

Pathways by source for PAPD7 Gene

Gene Ontology (GO) - Biological Process for PAPD7 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006302 double-strand break repair NAS 10066793
GO:0006397 mRNA processing IEA --
GO:0007062 sister chromatid cohesion TAS 10066793
GO:0007076 mitotic chromosome condensation NAS 10066793
GO:0042493 response to drug IDA 10066793
genes like me logo Genes that share ontologies with PAPD7: view

No data available for SIGNOR curated interactions for PAPD7 Gene

Drugs & Compounds for PAPD7 Gene

(1) Drugs for PAPD7 Gene - From: PharmGKB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Gemcitabine Approved Pharma Ribonucleotide reductase and DNA synthesis inhibitor, Nucleoside Analogs 2100

(1) Additional Compounds for PAPD7 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
pyrophosphate
  • (4-)Diphosphoric acid ion
  • (P2O74-)Diphosphate
  • Diphosphate
  • Diphosphoric acid
  • PPi
14000-31-8
genes like me logo Genes that share compounds with PAPD7: view

Transcripts for PAPD7 Gene

Unigene Clusters for PAPD7 Gene

PAP associated domain containing 7:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PAPD7 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b ^ 11a · 11b ^ 12a · 12b ^ 13
SP1: - -
SP2:
SP3:
SP4:

Relevant External Links for PAPD7 Gene

GeneLoc Exon Structure for
PAPD7
ECgene alternative splicing isoforms for
PAPD7

Expression for PAPD7 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PAPD7 Gene

Protein differential expression in normal tissues from HIPED for PAPD7 Gene

This gene is overexpressed in Serum (67.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for PAPD7 Gene



Protein tissue co-expression partners for PAPD7 Gene

NURSA nuclear receptor signaling pathways regulating expression of PAPD7 Gene:

PAPD7

SOURCE GeneReport for Unigene cluster for PAPD7 Gene:

Hs.481542

Evidence on tissue expression from TISSUES for PAPD7 Gene

  • Gall bladder(2.5)
  • Heart(2.5)
  • Kidney(2.5)
  • Lymph node(2.5)
  • Muscle(2.5)
  • Pancreas(2.5)
  • Skin(2.5)
  • Stomach(2.5)
  • Thyroid gland(2.5)
  • Lung(4.5)
  • Nervous system(4.5)
  • Intestine(2.9)
  • Adrenal gland(2.5)
  • Bone marrow(2.5)
genes like me logo Genes that share expression patterns with PAPD7: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PAPD7 Gene

Orthologs for PAPD7 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for PAPD7 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PAPD7 34
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PAPD7 33 34
  • 88.5 (n)
mouse
(Mus musculus)
Mammalia Papd7 33 16 34
  • 86.72 (n)
rat
(Rattus norvegicus)
Mammalia Papd7 33
  • 86.69 (n)
cow
(Bos Taurus)
Mammalia PAPD7 33 34
  • 85.03 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia PAPD7 34
  • 70 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PAPD7 34
  • 55 (a)
OneToOne
chicken
(Gallus gallus)
Aves PAPD7 33 34
  • 78.04 (n)
lizard
(Anolis carolinensis)
Reptilia PAPD7 34
  • 73 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii papd7 33 34
  • 65.82 (n)
fruit fly
(Drosophila melanogaster)
Insecta Trf4-2 34
  • 34 (a)
ManyToMany
Trf4-1 34
  • 23 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea gld-4 34
  • 18 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PAP2 34
  • 20 (a)
ManyToMany
TRF5 34 36
  • 18 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.9243 34
  • 29 (a)
OneToMany
Species where no ortholog for PAPD7 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)
  • 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)

Evolution for PAPD7 Gene

ENSEMBL:
Gene Tree for PAPD7 (if available)
TreeFam:
Gene Tree for PAPD7 (if available)

Paralogs for PAPD7 Gene

Paralogs for PAPD7 Gene

(2) SIMAP similar genes for PAPD7 Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for PAPD7 Gene

genes like me logo Genes that share paralogs with PAPD7: view

Variants for PAPD7 Gene

Sequence variations from dbSNP and Humsavar for PAPD7 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000009135 -- 6,727,108(+) C/T genic_upstream_transcript_variant, intron_variant
rs1000124072 -- 6,731,025(+) C/T genic_upstream_transcript_variant, intron_variant
rs1000134809 -- 6,727,302(+) C/T genic_upstream_transcript_variant, intron_variant
rs1000138173 -- 6,718,306(+) G/A genic_upstream_transcript_variant, intron_variant
rs1000199581 -- 6,747,153(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for PAPD7 Gene

Variant ID Type Subtype PubMed ID
nsv830196 CNV gain 17160897
nsv822996 CNV gain 20364138
nsv822995 CNV gain 20364138
nsv822994 CNV gain 20364138
nsv822993 CNV loss 20364138
nsv596976 CNV loss 21841781
nsv596974 CNV gain+loss 21841781
nsv596965 CNV loss 21841781
nsv596958 CNV gain+loss 21841781
nsv596950 CNV loss 21841781
nsv596949 CNV loss 21841781
nsv596947 CNV loss 21841781
nsv476053 CNV novel sequence insertion 20440878
nsv461922 CNV loss 19166990
nsv1144100 CNV deletion 24896259
nsv1122100 CNV deletion 24896259
nsv1074806 CNV deletion 25765185
esv3603920 CNV loss 21293372
esv23095 CNV gain+loss 19812545
dgv9559n54 CNV gain 21841781
dgv9558n54 CNV loss 21841781
dgv9556n54 CNV gain 21841781

Variation tolerance for PAPD7 Gene

Residual Variation Intolerance Score: 11.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.09; 22.27% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PAPD7 Gene

Human Gene Mutation Database (HGMD)
PAPD7
SNPedia medical, phenotypic, and genealogical associations of SNPs for
PAPD7

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PAPD7 Gene

Disorders for PAPD7 Gene

Additional Disease Information for PAPD7

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

No disorders were found for PAPD7 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PAPD7 Gene

Publications for PAPD7 Gene

  1. The topoisomerase-related function gene TRF4 affects cellular sensitivity to the antitumor agent camptothecin. (PMID: 10066793) Walowsky C … Christman MF (The Journal of biological chemistry 1999) 2 3 4 22 58
  2. Molecular cloning and characterization of a novel isoform of the non-canonical poly(A) polymerase PAPD7. (PMID: 23376078) Ogami K … Hoshino S (Biochemical and biophysical research communications 2013) 2 3 4 58
  3. Pol kappa: A DNA polymerase required for sister chromatid cohesion. (PMID: 10926539) Wang Z … Christman MF (Science (New York, N.Y.) 2000) 2 3 4 58
  4. Genome-wide association study identifies novel loci associated with circulating phospho- and sphingolipid concentrations. (PMID: 22359512) Demirkan A … EUROSPAN consortium (PLoS genetics 2012) 3 44 58
  5. A genome-wide study of common SNPs and CNVs in cognitive performance in the CANTAB. (PMID: 19734545) Need AC … Goldstein DB (Human molecular genetics 2009) 3 44 58

Products for PAPD7 Gene

Sources for PAPD7 Gene

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