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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

NT5DC2 Gene

protein-coding   GIFtS: 47
GCID: GC03M052534

5'-nucleotidase domain containing 2
  Search for NT5DC2
in
MalaCards
our new
 Human Malady Compendium 
Biological research products
for NT5DC2    

Aliases
for NT5DC2 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
5'-Nucleotidase Domain Containing 21 2
FLJ124421
5'-Nucleotidase Domain-Containing Protein 22
EC 3.1.3.-3

External Ids:    HGNC: 257171   Entrez Gene: 649432   Ensembl: ENSG000001682687   UniProtKB: Q9H8573   

Export aliases for NT5DC2 gene to outside databases


Summaries
for NT5DC2 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
  --

Genomic Views
for NT5DC2 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000003.11  NC_018914.1  NT_022517.18  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the NT5DC2 gene promoter:
         E2F-3a   E2F-4   E2F-5   E2F   E2F-2   GATA-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: NT5DC2 promoter sequence
   Search SABiosciences Chromatin IP Primers for NT5DC2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat NT5DC2


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 3p21.1   Ensembl cytogenetic band:  3p21.1   HGNC cytogenetic band: 3p21.1

NT5DC2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
NT5DC2 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M052534:  view genomic region     (about GC identifiers)

Start:
 52,558,385 bp from pter      End:
 52,569,093 bp from pter
Size:
 10,709 bases      Orientation:
 minus strand

Proteins
for NT5DC2 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: NT5D2_HUMAN, Q9H857 (See protein sequence)
Recommended Name: 5'-nucleotidase domain-containing protein 2  
Size: 520 amino acids; 60719 Da
Secondary accessions: O95888 Q96C80 Q9H9Z8
Alternative splicing: 4 isoforms:  Q9H857-1   Q9H857-2   Q9H857-3   Q9H857-4   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for NT5DC2: NX_Q9H857

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9H857

    • NT5DC2 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_001127703.1  NP_075059.1  

    ENSEMBL proteins: 
     ENSP00000418780   ENSP00000302468   ENSP00000406933   ENSP00000419547   ENSP00000419774  
     ENSP00000417269   ENSP00000418583   ENSP00000306017  

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    Uscn Proteins for NT5DC2


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    Uscn Antibodies for NT5DC2
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    Uscn ELISAs and CLIAs for NT5DC2

    Protein Domains /
    Families
    for NT5DC2 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    NT5DC2 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR023214 HAD-like_dom
     IPR008380 HAD-SF_hydro_IG_5-nucl
     IPR016695 Pur_nucleotidase

    Graphical View of Domain Structure for InterPro Entry Q9H857

    ProtoNet protein and cluster: Q9H857

    1 Blocks protein family: IPB001064 Beta and gamma crystallin

    UniProtKB/Swiss-Prot: NT5D2_HUMAN, Q9H857
    Similarity: Belongs to the 5'(3')-deoxyribonucleotidase family


    Function
    for NT5DC2 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    Enzyme Number (IUBMB): EC 3.1.3.-1

    miRNA
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    hsa-miR-137
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    Inhib. RNA
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    OriGene shRNA RFP: NT5DC2
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    Gene Editing
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    Clone
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    OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for NT5DC2 (see all 4)
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    Cell Line
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    Search LifeMap BioReagents cell lines for NT5DC2

    In Situ Assay
    Products:       
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for NT5DC2

    Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016787hydrolase activity IEA--
    GO:0046872metal ion binding IEA--


    NT5DC2 for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for NT5DC2:
     Decreased viability of wild-ty 


    Pathways & Interactions
    for NT5DC2 gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for NT5DC2

    STRING Interaction Network Preview (showing 5 interactants - click image to see 7)

    5/11 Interacting proteins for NT5DC2 (Q9H8572, 3 ENSP000004069334) via UniProtKB, MINT, STRING, and/or I2D (see all 11)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    TRAF1Q130772, 3, ENSP000003629944MINT-49517 I2D: score=2 STRING: ENSP00000362994
    TRAF2Q129332, 3, ENSP000002476684MINT-49551 I2D: score=2 STRING: ENSP00000247668
    TRMT10CQ7L0Y33, ENSP000003123564I2D: score=1 STRING: ENSP00000312356
    TSG101Q998163, ENSP000002519684I2D: score=1 STRING: ENSP00000251968
    TOLLIPQ9H0E23, ENSP000003147334I2D: score=1 STRING: ENSP00000314733
    About this table

    Drugs & Compounds
    for NT5DC2 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for NT5DC2
    Search CenterWatch for drugs/clinical trials and news about NT5DC2 / NT5D2 

    Transcripts
    for NT5DC2 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for NT5DC2 gene (2 alternative transcripts): 
    NM_001134231.1  NM_022908.2  

    Unigene Cluster for NT5DC2:

    5'-nucleotidase domain containing 2
    Hs.84753  [show with all ESTs]
    Unigene Representative Sequence: AK091962
    16 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000463947 ENST00000479024 ENST00000307076(uc003deo.3) ENST00000422318(uc003den.3)
    ENST00000462261 ENST00000459839 ENST00000492555(uc010hmj.3) ENST00000469616
    ENST00000466112 ENST00000478091 ENST00000489316 ENST00000486792 ENST00000471522
    ENST00000487779 ENST00000490681 ENST00000307092(uc003dem.3 uc010hmi.3)


    miRNA
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    1 QIAGEN miScript miRNA Assays for microRNA that regulate NT5DC2:
    hsa-miR-137
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    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for NT5DC2 (see all 7)
    OriGene shRNA RFP: NT5DC2
    OriGene siRNA: NT5DC2
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat NT5DC2
    Clone
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    Additional cDNA sequence: 

    AF131781.1 AK022504.1 AK023995.1 AK091962.1 AK092469.1 BC014550.1 BC047747.1 

    24/25 DOTS entries (see all 25):

    DT.100821306  DT.100821315  DT.97824967  DT.95080636  DT.100821311  DT.118715  DT.95250396  DT.75154693 
    DT.100030652  DT.100030656  DT.120869757  DT.100821314  DT.120869854  DT.120869933  DT.40117496  DT.100821312 
    DT.92029584  DT.92453166  DT.92453168  DT.95080633  DT.99981211  DT.100821313  DT.91842775  DT.95080639 

    24/293 AceView cDNA sequences (see all 293):

    BC047747 F11848 BQ575608 NM_022908 BM557556 CB135813 F12537 Z41597 
    AI910442 R63586 AI073440 BU856379 BM823824 BQ064579 AI363467 BQ711598 
    BM557521 F02464 BM709509 AW510639 BU628519 BG765222 BM755717 BE018250 

    GeneLoc Exon Structure

    5/15 Alternative Splicing Database (ASD) splice patterns (SP) for NT5DC2 (see all 15)    About this scheme

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

    ExUns: 19a · 19b
    SP1:            
    SP2:            
    SP3:            
    SP4:            
    SP5:            


    ECgene alternative splicing isoforms for NT5DC2

    Expression
    for NT5DC2 gene

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    NT5DC2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GCCCACATCC

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    NT5DC2 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    1 LifeMap In Vivo Development Anatomical Compartment/Cell 
    Tissue Anatomical Compartment CellCategory (developmental path)
    Skeletal MuscleExtraocular MusclesSkeletal Muscle
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See NT5DC2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for NT5DC2

    SOURCE GeneReport for Unigene cluster: Hs.84753
        SABiosciences Custom PCR Arrays for NT5DC2
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    In Situ
    Assay Products:     
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    Orthologs
    for NT5DC2 gene

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section
    This gene was present in the common ancestor of eukaryotes.

    Orthologs for NT5DC2 gene from 7/27 species (see all 27)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves NT5DC21 5'-nucleotidase domain containing 2 74.71(n)
    79.67(a)    		   415895  XM_414247.3  XP_414247.3 
    lizard
    (Anolis carolinensis)    		 Reptilia NT5DC26
    		 --
    		 76(a)
    		 1 ↔ 1
    		 2(154748035-154783061)
    African clawed frog
    (Xenopus laevis)    		 Amphibia MGC538402 hypothetical protein MGC53840 78.05(n)    BC046742.1 
    zebrafish
    (Danio rerio)    		 Actinopterygii wufb83e032 Transcribed sequence with weak similarity to protein more 78.51(n)    BI885890.1 
    fruit fly
    (Drosophila melanogaster)    		 Insecta CG18146
    		 --
    		 40(a)
    		 1 → many
    		 2R(5464932-5469352)
    thale cress
    (Arabidopsis thaliana)    		 eudicotyledons AT2G238901 HAD-superfamily hydrolase, subfamily IG, 5'-nucleotidase 47.7(n)
    40.71(a)    		   816921  NM_127950.3  NP_179967.3 
    rice
    (Oryza sativa)    		 Liliopsida Os09g04246001 hypothetical protein 48.4(n)
    40.28(a)    		   4347105  NM_001069753.1  NP_001063218.1 


    ENSEMBL Gene Tree for NT5DC2 (if available)
    TreeFam Gene Tree for NT5DC2 (if available) 

    Paralogs
    for NT5DC2 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for NT5DC2 gene
    NT5DC32  NT5DC12  NT5C22  NT5DC42  
    1 SIMAP similar gene for NT5DC2 using alignment to 7 protein entries:     NT5D2_HUMAN (see all proteins):
    NT5DC3

    NT5DC2 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for NT5DC2
    PGOHUM00000241101


    Genomic Variants
    for NT5DC2 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/221 NCBI SNPs in NT5DC2 are shown (see all 221)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 3 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1445632571,2
    		C,F,--52559025(+) TCAGCG/AAGTGC 4 /S /L mis11Minor allele frequency- A:0.00NA 3648
    rs1437994711,2
    		C,F,--52559042(+) TGCTCC/TGTGTT 4 T syn12Minor allele frequency- T:0.00NA EU 4019
    rs2019630221,2
    		--52559084(+) ATGATA/GGCGCC 4 A syn10--------
    rs2013277871,2
    		C,--52559251(+) GTCCCC/TGAAGT 4 R G mis10--------
    rs2007733481,2
    		--52559266(+) CACGCA/GGGGGC 4 R C mis10--------
    rs1996506251,2
    		--52559282(+) CATTCC/TGTCAA 4 T syn10--------
    rs1817838461,2
    		--52559404(+) CCAGCC/TGGATG 2 -- int10--------
    rs1484779251,2
    		--52559490(+) AAGGGA/GATTCT 2 -- int10--------
    rs117092841,2
    		C,F,A,H,--52559705(+) TCACCA/GGGGCC 2 -- int117Minor allele frequency- G:0.43NA EA WA CSA 740
    rs783437551,2
    		F,--52559804(+) GGCCCA/GGAGCA 2 -- int11Minor allele frequency- G:0.13WA 118

    HapMap Linkage Disequilibrium report for NT5DC2 (52558385 - 52569093 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for NT5DC2
         1 Indel: 68376

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing NT5DC2
    DNA2.0 Custom Variant and Variant Library Synthesis for NT5DC2

    Disorders / Diseases
    for NT5DC2 gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    		   --

    Publications
    for NT5DC2 gene

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for NT5DC2 gene, integrated from 9 sources (see all 15):
    (articles sorted by number of sources associating them with NT5DC2)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    3. Large-scale concatenation cDNA sequencing. (PubMed id 9110174)1, 3 Yu W.... Gibbs R.A. (1997)
    4. A "double adaptor" method for improved shotgun library construction. (PubMed id 8619474)1, 3 Andersson B.... Gibbs R.A. (1996)
    5. Mapping a dynamic innate immunity protein interaction network regulating type I interferon production. (PubMed id 21903422)1 Li S....Dorf M.E. (2011)
    6. Large-scale genome-wide association analysis of bipol ar disorder identifies a new susceptibility locus near ODZ4. (PubMed id 21926972)1 Sklar P....Purcell S.M. (2011)
    7. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    8. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
    9. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    10. The protein network surrounding the human telomere re peat binding factors TRF1, TRF2, and POT1. (PubMed id 20811636)1 Giannone R.J....Liu Y. (2010)

    External Searches for NT5DC2 gene

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    Genome Databases showing NT5DC2 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 64943 HGNC: 25717 AceView: FLJ12442 Ensembl:ENSG00000168268 euGenes: HUgn64943
    ECgene: NT5DC2 H-InvDB: NT5DC2

    Other Databases showing NT5DC2 gene

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    Specialized Databases showing NT5DC2 gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
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    PharmGKB entry for NT5DC2 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
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