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

DBC1 Gene

protein-coding   GIFtS: 52
GCID: GC09M121915

deleted in bladder cancer 1

(Previous name: deleted in bladder cancer chromosome region candidate 1...)
(Previous symbol: DBCCR1)
 Explore 13 diseases affiliated with
DBC1 via our new
 Human Malady Compendium 
Biological research products
for DBC1
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Deleted In Bladder Cancer 11 2     Deleted In Bladder Cancer Chromosome Region Candidate 11 2
DBCCR11 2 3 5     BA574M5.1 (Deleted In Bladder Cancer Chromosome Region Candidate 1 (IB3089A))2
FAM5A1 2 3     Deleted In Bladder Cancer Protein 12
BRINP11 2     Protein FAM5A3

External Ids:    HGNC: 26871   Entrez Gene: 16202   Ensembl: ENSG000000787257   OMIM: 6028655   UniProtKB: O604773   

Export aliases for DBC1 gene to outside databases

Previous GC identifers: GC09U990016 GC09M117304 GC09M119008 GC09M120968 GC09M091546


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

Entrez Gene summary for DBC1:
This gene is located within a chromosomal region that shows loss of heterozygosity in some bladder cancers. It contains
a 5' CpG island that may be a frequent target of hypermethylation, and it may undergo hypermethylation-based silencing
in some bladder cancers. (provided by RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: DBC1_HUMAN, O60477
Function: Inhibits cell proliferation by negative regulation of the G1/S transition. Mediates cell death which is not
of the classical apoptotic type and regulates expression of components of the plasminogen pathway

Gene Wiki entry for DBC1


(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_000009.11  NC_018920.1  NT_008470.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the DBC1 gene promoter:
         MyoD   MIF-1   Nkx2-5   NF-kappaB   GATA-1   FOXI1   IRF-7A   NF-kappaB1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidDBC1 promoter sequence
   Search SABiosciences Chromatin IP Primers for DBC1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat DBC1


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

Entrez Gene cytogenetic band: 9q32-q33   Ensembl cytogenetic band:  9q33.1   HGNC cytogenetic band: 9q32-q33

DBC1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
DBC1 gene location

GeneLoc information about chromosome 9         GeneLoc Exon Structure

GeneLoc location for GC09M121915:  view genomic region     (about GC identifiers)

Start:
121,915,736 bp from pter      End:
122,131,745 bp from pter
Size:
216,010 bases      Orientation:
minus strand

(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: DBC1_HUMAN, O60477 (See protein sequence)
Recommended Name: Deleted in bladder cancer protein 1 precursor  
Size: 761 amino acids; 88760 Da
Subcellular location: Cytoplasm
Miscellaneous: DBC1 is silenced by methylation in 50% of bladder cancer cell lines
Secondary accessions: Q6IPV6 Q6P1A0 Q8WU22
Alternative splicing: 3 isoforms:  O60477-1   O60477-2   O60477-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for DBC1: NX_O60477

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_O60477

  • DBC1 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_055433.2  
    ENSEMBL proteins: 
     ENSP00000363080   ENSP00000363075   ENSP00000265922  

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    Uscn Proteins for DBC1

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm IDA11420708
    GO:0015630microtubule cytoskeleton IDA--


    DBC1 for ontologies           About GeneDecksing



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

    DBC1 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR020864 MACPF

    Graphical View of Domain Structure for InterPro Entry O60477

    ProtoNet protein and cluster: O60477

    UniProtKB/Swiss-Prot: DBC1_HUMAN, O60477
    Similarity: Belongs to the FAM5 family
    Similarity: Contains 1 MACPF domain


    (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

    Function Summary:

         UniProtKB/Swiss-Prot: DBC1_HUMAN, O60477
    Function: Inhibits cell proliferation by negative regulation of the G1/S transition. Mediates cell death which is not
    of the classical apoptotic type and regulates expression of components of the plasminogen pathway

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    hsa-miR-323-3p hsa-miR-34c-5p hsa-miR-448 hsa-miR-495 hsa-miR-449b hsa-miR-922 hsa-miR-449a hsa-miR-34a
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    Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI--


    DBC1 for ontologies           About GeneDecksing



    (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 DBC1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/26 Interacting proteins for DBC1 (O604771, 3 ENSP000002659224) via UniProtKB, MINT, STRING, and/or I2D (see all 26)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HDAC3O153793, ENSP000003029674I2D: score=1 STRING: ENSP00000302967
    SIRT1Q96EB63, ENSP000002120154I2D: score=1 STRING: ENSP00000212015
    SMPDL3AQ924843, ENSP000003574254I2D: score=1 STRING: ENSP00000357425
    SUV39H1O434633, ENSP000003658774I2D: score=1 STRING: ENSP00000365877
    HDAC1Q135473, ENSP000003626494I2D: score=1 STRING: ENSP00000362649
    About this table

    Gene Ontology (GO): 3 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007050cell cycle arrest IEA--
    GO:0008219cell death IDA14712213
    GO:0045786negative regulation of cell cycle IDA11420708


    DBC1 for ontologies           About GeneDecksing



    (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 DBC1
    Search CenterWatch for drugs/clinical trials and news about DBC1 

    (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 DBC1 gene: 
    NM_014618.2  

    Unigene Cluster for DBC1:

    Deleted in bladder cancer 1
    Hs.532316  [show with all ESTs]
    Unigene Representative Sequence: NM_014618
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000482797 ENST00000373969 ENST00000373964(uc004bkd.2) ENST00000265922(uc004bkc.2)


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    hsa-miR-323-3p hsa-miR-34c-5p hsa-miR-448 hsa-miR-495 hsa-miR-449b hsa-miR-922 hsa-miR-449a hsa-miR-34a
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    Additional cDNA sequence: 

    AF027734.1 AK293501.1 AK293649.1 BC021560.1 BC065196.1 BC071702.1 

    8 DOTS entries:

    DT.113756  DT.100744735  DT.91899659  DT.92418485  DT.92418486  DT.95373446  DT.95373447  DT.99974558 

    24/58 AceView cDNA sequences (see all 58):

    BM726737 F08986 Z41452 T16063 BU626191 BC071702 BM929506 BI488483 
    AI874202 BC021560 BF309931 NM_014618 BC065196 BF348205 R42933 BG419841 
    AW955370 BI489454 BX096489 T15661 AA326334 CB047003 BM681521 AA599898 

    GeneLoc Exon Structure


    (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

    DBC1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: --

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

    About this image

    DBC1 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    2 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    Skeletal MuscleHyoid Arch MusclesMyoblastsSkeletal Muscle
    Skeletal MuscleMandibular Arch MusclesMyoblastsSkeletal Muscle
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 2 LifeMap Cells 
    NameCategory
    Ventral/hypothalamic-like neurons (Generation of midbra...)
    Nkx2-1 GFP+ cells (Efficient derivation...)

    See DBC1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for DBC1

    SOURCE GeneReport for Unigene cluster: Hs.532316

    UniProtKB/Swiss-Prot: DBC1_HUMAN, O60477
    Tissue specificity: Highly expressed in brain. Weakly expressed in heart, lung, skeletal muscle, kidney, thymus,
    prostate, testis and small intestine

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    (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 chordates.

    Orthologs for DBC1 gene from 5/11 species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Dbc11 , 5 deleted in bladder cancer 1 (human)1, 5 92.37(n)1
    98.82(a)1
      4 (35.03 cM)5
    567101  NM_019967.21  NP_064351.21 
     687615145 
    chicken
    (Gallus gallus)
    Aves DBC11 deleted in bladder cancer 1 87.12(n)
    95.93(a)
      395098  NM_204449.1  NP_989780.1 
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    (see all 3)
    --
    99(a)
    87(a)
    (see all 3)
    many → 1
    many → 1
    (see all 3)
    AAWZ02039896(2045-5437)
    GL343398.1(3924-39282)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.326042 Xenopus laevis transcribed sequence with moderate similarity more 79.07(n)    BJ621296.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC1003343751 deleted in bladder cancer protein 1 homolog 77.26(n)
    85.42(a)
      100334375  XM_002662218.2  XP_002662264.2 


    ENSEMBL Gene Tree for DBC1 (if available)
    TreeFam Gene Tree for DBC1 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for DBC1 gene
    FAM5B2  FAM5C2  
    2 SIMAP similar genes for DBC1 using alignment to 1 protein entry:     DBC1_HUMAN:
    FAM5B    FAM5C

    DBC1 for paralogs           About GeneDecksing



    (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

    10/3253 NCBI SNPs in DBC1 are shown (see all 3253    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 9 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs2022018741,2
    --121928486(+) GACTG-/AAAAAA 1 -- ds50010--------
    rs1505784931,2
    C,--121928843(+) GTGTG-/AGAA  
            
    AGAGT
    1 -- ds50010--------
    rs2301041,2
    C,F,H,--121928870(-) TGTGTT/GTGTTT 1 -- ds500114Minor allele frequency- G:0.20NS NA WA CSA 1714
    rs792913861,2
    C,F,--121928928(+) AAATAT/GCTTCT 1 -- ut311Minor allele frequency- G:0.05EA 120
    rs1491751151,2
    --121929185(+) CCCAAC/TGCTTT 1 -- ut310--------
    rs1465416521,2
    --121929285(+) GGTTTC/TTTTGT 1 -- ut310--------
    rs774278271,2
    C,--121929357(+) GAGTCC/TCGGGT 1 -- ut311Minor allele frequency- T:0.01EA 120
    rs1443649321,2
    C,F--121929511(+) TTTCCC/TCGGGG 2 R G mis12Minor allele frequency- T:0.00NA EU 5873
    rs284531,2
    C,F,O,A,H,--121929575(-) TCGTCA/GGTGAT 2 S syn1 ese332Minor allele frequency- G:0.21MN NS EA NA WA CSA EU 8662
    rs1411131141,2
    C,F--121929578(+) ACTGAC/TGAAGA 2 S syn12Minor allele frequency- T:0.00NA EU 5875

    HapMap Linkage Disequilibrium report for DBC1 (121915736 - 122131745 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for DBC1
         1 Indel: 60766

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

    DBC1 for disorders           About GeneDecksing

    OMIM gene information: 602865    OMIM disorders: --

    13 diseases for DBC1:    About MalaCards
    non-invasive bladder papillary urothelial neoplasm    urinary bladder cancer    oral squamous cell carcinoma    squamous cell carcinoma
    transitional cell carcinoma    multiple sclerosis    parkinson's disease    carcinoma
    breast carcinoma    astrocytoma    lung cancer    breast cancer
    prostatitis

    1 disease from the University of Copenhagen DISEASES database for DBC1:
    non-invasive bladder papillary urothelial neoplasm

    5 Novoseek disease relationships for DBC1 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    bladder cancer 72.6 13 11420708 (3), 9545632 (2), 14712213 (1), 12442002 (1) (see all 7)
    carcinoma transitional cell 65 1 11921286 (1)
    bladder tumors 63.8 5 14712213 (2), 12442002 (1), 11921286 (1)
    tumors 25.9 10 15746151 (3), 14712213 (1), 9545632 (1), 11450846 (1) (see all 8)
    cancer 0 1 15746151 (1)

    Human Genome Epidemiology (HuGE) Navigator: DBC1 (6 documents)

    Export disorders for DBC1 gene to outside databases

    (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 DBC1 gene, integrated from 9 sources (see all 43):
    (articles sorted by number of sources associating them with DBC1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Negative regulation of G(1)/S transition by the candidate bladder tumour suppressor gene DBCCR1. (PubMed id 11420708)1, 2, 9 Nishiyama H.... Knowles M.A. (2001)
    2. DBCCR1 mediates death in cultured bladder tumor cells. (PubMed id 14712213)1, 2, 9 Wright K.O.... Reeder J.E. (2004)
    3. Structure and methylation-based silencing of a gene (DBCCR1) within a candidate bladder cancer tumor suppressor region at 9q32-q33. (PubMed id 9545632)1, 2, 9 Habuchi T.... Knowles M.A. (1998)
    4. A sequence-ready 840-kb PAC contig spanning the candidate tumor suppressor locus DBC1 on human chromosome 9q32-q33. (PubMed id 10444335)1, 3, 9 Nishiyama H....Knowles M.A. (1999)
    5. DBC1 re-expression alters the expression of multiple components of the plasminogen pathway. (PubMed id 16369496)1, 2 Louhelainen J.P....Knowles M.A. (2006)
    6. DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)1, 2 Humphray S.J.... Dunham I. (2004)
    7. 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)
    8. A novel candidate tumour suppressor locus at 9q32-33 in bladder cancer: localization of the candidate region within a single 840 kb YAC. (PubMed id 9175739)1, 3 Habuchi T....Knowles M.A. (1997)
    9. Frequent silencing of DBC1 is by genetic or epigenetic mechanisms in non-small cell lung cancers. (PubMed id 15746151)1, 9 Izumi H....Imoto I. (2005)
    10. Increased expression of the acid sphingomyelinase-like protein ASML3a in bladder tumors. (PubMed id 12442002)1, 9 Wright K.O....Reeder J.E. (2002)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 1620 HGNC: 2687 AceView: DBC1 Ensembl:ENSG00000078725 euGenes: HUgn1620
    ECgene: DBC1 H-InvDB: DBC1

    (According to HUGE)
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    About This Section
    NameDescription
    PharmGKB entry for DBC1 Pharmacogenomics, SNPs, Pathways
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