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Aliases for NT5DC3 Gene

Aliases for NT5DC3 Gene

  • 5'-Nucleotidase Domain Containing 3 2
  • 5-Nucleotidase Domain Containing 3 2 3 5
  • TU12B1-TY 3 4
  • 5-Nucleotidase Domain-Containing Protein 3 3
  • GRP94-Neighboring Nucleotidase 4
  • EC 3.1.3.- 4
  • TU12B1TY 3
  • GNN 4

External Ids for NT5DC3 Gene

Previous GeneCards Identifiers for NT5DC3 Gene

  • GC12M102669
  • GC12M104164
  • GC12M101226

Summaries for NT5DC3 Gene

GeneCards Summary for NT5DC3 Gene

NT5DC3 (5'-Nucleotidase Domain Containing 3) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include hydrolase activity and 5-nucleotidase activity. An important paralog of this gene is NT5DC2.

Additional gene information for NT5DC3 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NT5DC3 Gene

Genomics for NT5DC3 Gene

GeneHancer (GH) Regulatory Elements for NT5DC3 Gene

Promoters and enhancers for NT5DC3 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
GH12I103839 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 560 -0.1 -52 2.8 PKNOX1 CLOCK MLX ARNT ARID4B NEUROD1 SIN3A DMAP1 YY1 ZNF143 NT5DC3 ENSG00000257327 TDG RPL18AP3 C12orf73 TTC41P
GH12I103797 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 35.1 +38.8 38828 10 CLOCK SMAD1 FOXA2 ARNT NEUROD1 FOS KLF13 JUNB ZNF592 MEF2D NT5DC3 ENSG00000257681 TDG ENSG00000257754
GH12I103808 Enhancer 0.8 ENCODE 35.4 +31.7 31735 1.2 HDAC1 PKNOX1 ZFP64 TCF12 ZNF766 SCRT2 CREM ZEB2 NFIC KLF16 NT5DC3 ENSG00000257681 ENSG00000257754
GH12I103831 Enhancer 0.7 Ensembl ENCODE 36.1 +8.8 8763 1 IKZF1 HNF4A DPF2 SPI1 NT5DC3 TDG ENSG00000257754
GH12I103927 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 6.3 -89.1 -89103 6.4 CLOCK MLX FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF143 SP3 NFYC TTC41P GC12P103932 MIR3652 HSP90B1 GC12P103934 TDG RPL18AP3 C12orf73 NT5DC3 ENSG00000257681
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around NT5DC3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the NT5DC3 gene promoter:

Genomic Locations for NT5DC3 Gene

Genomic Locations for NT5DC3 Gene
chr12:103,763,312-103,841,245
(GRCh38/hg38)
Size:
77,934 bases
Orientation:
Minus strand
chr12:104,164,231-104,234,975
(GRCh37/hg19)

Genomic View for NT5DC3 Gene

Genes around NT5DC3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NT5DC3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NT5DC3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NT5DC3 Gene

Proteins for NT5DC3 Gene

  • Protein details for NT5DC3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86UY8-NT5D3_HUMAN
    Recommended name:
    5-nucleotidase domain-containing protein 3
    Protein Accession:
    Q86UY8
    Secondary Accessions:
    • Q9NUM7
    • Q9P2T2
    • Q9P2T3

    Protein attributes for NT5DC3 Gene

    Size:
    548 amino acids
    Molecular mass:
    63420 Da
    Cofactor:
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA92095.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAA93053.1; Type=Frameshift; Positions=62; Evidence={ECO:0000305};

    Alternative splice isoforms for NT5DC3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NT5DC3 Gene

Post-translational modifications for NT5DC3 Gene

No Post-translational modifications

Other Protein References for NT5DC3 Gene

No data available for DME Specific Peptides for NT5DC3 Gene

Domains & Families for NT5DC3 Gene

Gene Families for NT5DC3 Gene

Human Protein Atlas (HPA):
  • Predicted secreted proteins

Protein Domains for NT5DC3 Gene

Suggested Antigen Peptide Sequences for NT5DC3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q86UY8

UniProtKB/Swiss-Prot:

NT5D3_HUMAN :
  • Belongs to the 5(3)-deoxyribonucleotidase family.
Family:
  • Belongs to the 5(3)-deoxyribonucleotidase family.
genes like me logo Genes that share domains with NT5DC3: view

Function for NT5DC3 Gene

Enzyme Numbers (IUBMB) for NT5DC3 Gene

Phenotypes From GWAS Catalog for NT5DC3 Gene

Gene Ontology (GO) - Molecular Function for NT5DC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008253 5-nucleotidase activity IBA --
GO:0016787 hydrolase activity IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with NT5DC3: view

Phenotypes for NT5DC3 Gene

GenomeRNAi human phenotypes for NT5DC3:
genes like me logo Genes that share phenotypes with NT5DC3: view

Animal Model Products

miRNA for NT5DC3 Gene

miRTarBase miRNAs that target NT5DC3

Clone Products

No data available for Molecular function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NT5DC3 Gene

Localization for NT5DC3 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 NT5DC3 gene
Compartment Confidence
mitochondrion 3
cytosol 2

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for NT5DC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043235 receptor complex IDA 23382219
genes like me logo Genes that share ontologies with NT5DC3: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for NT5DC3 Gene

Pathways & Interactions for NT5DC3 Gene

SuperPathways for NT5DC3 Gene

No Data Available

Interacting Proteins for NT5DC3 Gene

Gene Ontology (GO) - Biological Process for NT5DC3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016311 dephosphorylation IEA --
genes like me logo Genes that share ontologies with NT5DC3: view

No data available for Pathways by source and SIGNOR curated interactions for NT5DC3 Gene

Drugs & Compounds for NT5DC3 Gene

(1) Drugs for NT5DC3 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Magnesium Approved Nutra 0
genes like me logo Genes that share compounds with NT5DC3: view

Transcripts for NT5DC3 Gene

Unigene Clusters for NT5DC3 Gene

5-nucleotidase domain containing 3:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for NT5DC3 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14 ^ 15a · 15b ^ 16 ^ 17a · 17b ^ 18 ^ 19
SP1: - - -
SP2:
SP3: -
SP4:
SP5:

Relevant External Links for NT5DC3 Gene

GeneLoc Exon Structure for
NT5DC3
ECgene alternative splicing isoforms for
NT5DC3

Expression for NT5DC3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NT5DC3 Gene

mRNA differential expression in normal tissues according to GTEx for NT5DC3 Gene

This gene is overexpressed in Colon - Sigmoid (x11.3) and Esophagus - Muscularis (x4.7).

Protein differential expression in normal tissues from HIPED for NT5DC3 Gene

This gene is overexpressed in Frontal cortex (14.9), Colon (9.1), Rectum (7.7), Uterus (6.8), and Urinary Bladder (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NT5DC3 Gene



NURSA nuclear receptor signaling pathways regulating expression of NT5DC3 Gene:

NT5DC3

SOURCE GeneReport for Unigene cluster for NT5DC3 Gene:

Hs.48428

mRNA Expression by UniProt/SwissProt for NT5DC3 Gene:

Q86UY8-NT5D3_HUMAN
Tissue specificity: Expressed in brain, placenta, skeletal muscle, pancreas, testis, uterus, and small intestine. Reduced expression in pancreatic cancer cells.

Evidence on tissue expression from TISSUES for NT5DC3 Gene

  • Skin(4.3)
  • Nervous system(2.5)
genes like me logo Genes that share expression patterns with NT5DC3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for NT5DC3 Gene

Orthologs for NT5DC3 Gene

This gene was present in the common ancestor of animals.

Orthologs for NT5DC3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NT5DC3 33 34
  • 99.64 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia NT5DC3 34
  • 94 (a)
OneToOne
cow
(Bos Taurus)
Mammalia NT5DC3 33 34
  • 89.82 (n)
dog
(Canis familiaris)
Mammalia NT5DC3 33 34
  • 89.48 (n)
oppossum
(Monodelphis domestica)
Mammalia NT5DC3 34
  • 88 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Nt5dc3 33
  • 86.76 (n)
mouse
(Mus musculus)
Mammalia Nt5dc3 33 16 34
  • 86.69 (n)
chicken
(Gallus gallus)
Aves NT5DC3 33 34
  • 80.81 (n)
lizard
(Anolis carolinensis)
Reptilia NT5DC3 34
  • 82 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia nt5dc3 33
  • 73.43 (n)
zebrafish
(Danio rerio)
Actinopterygii nt5dc3 33 34
  • 71.91 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG1814 33 34
  • 53.29 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 41 (a)
OneToMany
Species where no ortholog for NT5DC3 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for NT5DC3 Gene

ENSEMBL:
Gene Tree for NT5DC3 (if available)
TreeFam:
Gene Tree for NT5DC3 (if available)

Paralogs for NT5DC3 Gene

Paralogs for NT5DC3 Gene

(2) SIMAP similar genes for NT5DC3 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with NT5DC3: view

Variants for NT5DC3 Gene

Sequence variations from dbSNP and Humsavar for NT5DC3 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000003215 -- 103,813,814(-) G/A genic_upstream_transcript_variant, intron_variant
rs1000057624 -- 103,811,959(-) T/A genic_upstream_transcript_variant, intron_variant
rs1000073332 -- 103,812,226(-) T/C genic_upstream_transcript_variant, intron_variant
rs1000103413 -- 103,807,574(-) C/T genic_upstream_transcript_variant, intron_variant
rs1000106539 -- 103,812,135(-) T/A genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for NT5DC3 Gene

Variant ID Type Subtype PubMed ID
nsv560039 CNV gain 21841781
nsv52873 CNV deletion 16902084
nsv1126318 CNV deletion 24896259
esv3892262 CNV gain 25118596
esv34031 CNV loss 18971310

Variation tolerance for NT5DC3 Gene

Residual Variation Intolerance Score: 20.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.56; 30.20% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NT5DC3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NT5DC3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NT5DC3 Gene

Disorders for NT5DC3 Gene

Additional Disease Information for NT5DC3

No disorders were found for NT5DC3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NT5DC3 Gene

Publications for NT5DC3 Gene

  1. Molecular genetics of adult ADHD: converging evidence from genome-wide association and extended pedigree linkage studies. (PMID: 18839057) Lesch KP … Jacob C (Journal of neural transmission (Vienna, Austria : 1996) 2008) 3 44 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. TU12B1-TY, a novel gene in the region at 12q22-q23.1 frequently deleted in pancreatic cancer, shows reduced expression in pancreatic cancer cells. (PMID: 15547748) Yatsuoka T … Horii A (Oncology reports 2004) 3 4 58
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  5. N-terminome analysis of the human mitochondrial proteome. (PMID: 25944712) Vaca Jacome AS … Carapito C (Proteomics 2015) 4 58

Products for NT5DC3 Gene

Sources for NT5DC3 Gene

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