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

UPK1B Gene

protein-coding   GIFtS: 52
GCID: GC03P118892

uroplakin 1B


(Previous symbol: UPK1)
 Explore 7 diseases affiliated with
UPK1B via our new
 Human Malady Compendium 
Biological research products
for UPK1B
    

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

Aliases
Uroplakin 1B1 2     Tetraspanin-203
TSPAN201 2 3     Tspan-203
UPK11 2     Uroplakin-1b1
Uroplakin Ib2 3     Tetraspanin-203
UP1b2 3     Tspan-203
UPIB2     UPIb3
Tetraspan1     

External Ids:    HGNC: 125781   Entrez Gene: 73482   Ensembl: ENSG000001146387   OMIM: 6023805   UniProtKB: O758413   

Export aliases for UPK1B gene to outside databases

Previous GC identifers: GC03P115581 GC03P118521 GC03P120173 GC03P120213 GC03P120375 GC03P116267


(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 UPK1B:
The protein encoded by this gene is a member of the transmembrane 4 superfamily, also known as the tetraspanin family.
Most of these members are cell-surface proteins that are characterized by the presence of four hydrophobic domains.
The proteins mediate signal transduction events that play a role in the regulation of cell development, activation,
growth and motility. This encoded protein is found in the asymmetrical unit membrane (AUM) where it can form a complex
with other transmembrane 4 superfamily proteins. It may play a role in normal bladder epithelial physiology, possibly
in regulating membrane permeability of superficial umbrella cells or in stabilizing the apical membrane through
AUM/cytoskeletal interactions. The use of alternate polyadenylation sites has been found for this gene. (provided by
RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: UPK1B_HUMAN, O75841
Function: Component of the asymmetric unit membrane (AUM); a highly specialized biomembrane elaborated by terminally
differentiated urothelial cells. May play an important role in normal bladder epithelial physiology, possibly in
regulating membrane permeability of superficial umbrella cells or in stabilizing the apical membrane through
AUM/cytoskeletal interactions (By similarity)

Gene Wiki entry for UPK1B


(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_005612.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the UPK1B gene promoter:
         MEF-2A   PPAR-gamma1   aMEF-2   PPAR-gamma2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidUPK1B promoter sequence
   Search SABiosciences Chromatin IP Primers for UPK1B

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat UPK1B


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

Entrez Gene cytogenetic band: 3q13.32   Ensembl cytogenetic band:  3q13.32   HGNC cytogenetic band: 3q13.32

UPK1B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
UPK1B gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03P118892:  view genomic region     (about GC identifiers)

Start:
118,892,364 bp from pter      End:
118,924,000 bp from pter
Size:
31,637 bases      Orientation:
plus 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: UPK1B_HUMAN, O75841 (See protein sequence)
Recommended Name: Uroplakin-1b  
Size: 260 amino acids; 29643 Da
Subunit: Heterodimer with uroplakin-3A (UPK3A) or uroplakin-3B (UPK3B) (By similarity)
Subcellular location: Membrane; Multi-pass membrane protein
Secondary accessions: O60753 Q9UIM2 Q9UNX6

Explore the universe of human proteins at neXtProt for UPK1B: NX_O75841

Post-translational modifications:

  • N-glycosylated with high-mannose oligosaccharides (By similarity)1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_O75841

  • UPK1B Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_008883.2  
    ENSEMBL proteins: 
     ENSP00000418972   ENSP00000264234   ENSP00000418399   ENSP00000418597   ENSP00000418116  

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    Uscn Proteins for UPK1B

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral to membrane NAS9818021
    GO:0016324apical plasma membrane IEA--


    UPK1B 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

    UPK1B for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR018499 Tetraspanin/Peripherin
     IPR000301 Tetraspanin
     IPR008952 Tetraspanin_EC2

    Graphical View of Domain Structure for InterPro Entry O75841

    ProtoNet protein and cluster: O75841

    1 Blocks protein family: IPB000301 Transmembrane four family signature

    UniProtKB/Swiss-Prot: UPK1B_HUMAN, O75841
    Similarity: Belongs to the tetraspanin (TM4SF) family


    (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: UPK1B_HUMAN, O75841
    Function: Component of the asymmetric unit membrane (AUM); a highly specialized biomembrane elaborated by terminally
    differentiated urothelial cells. May play an important role in normal bladder epithelial physiology, possibly in
    regulating membrane permeability of superficial umbrella cells or in stabilizing the apical membrane through
    AUM/cytoskeletal interactions (By similarity)

         Genatlas biochemistry entry for UPK1B:
    bovine uroplakin 1b homolog,forming 12nm protein particles in association with other UPKs,at the asymetric unit
    membrane of the bladder epithelium,strenghthening and stabilizing the urothelial epithelial surface trough its
    interactions with the underlying cytoskeleton,bladder specific,highly expressed in normal urothelium not in urothelial
    tumor cell lines

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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:0005198structural molecule activity NAS9935153


    UPK1B for ontologies           About GeneDecksing


    Animal Models:
         1 MGI mutant phenotype (inferred from 1 allele(MGI details for Upk1b):
     normal 

    UPK1B for phenotypes           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:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for UPK1B

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    2 Interacting proteins for UPK1B (O758413 ENSP000002642344) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UPK3BQ9BT763, ENSP000002576324I2D: score=1 STRING: ENSP00000257632
    UPK3AO756313, ENSP000002162114I2D: score=2 STRING: ENSP00000216211
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0030855epithelial cell differentiation IDA10514386


    UPK1B 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

    UPK1B for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for UPK1B
    1 Novoseek chemical compound relationship for UPK1B gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    troglitazone 54.7 2 15054105 (1)

    Search CenterWatch for drugs/clinical trials and news about UPK1B 

    (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,
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    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 UPK1B gene: 
    NM_006952.3  

    Unigene Cluster for UPK1B:

    Uroplakin 1B
    Hs.271580  [show with all ESTs]
    Unigene Representative Sequence: NM_006952
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000497685 ENST00000264234(uc003ecc.3 uc011bix.2 uc003ecd.3)
    ENST00000479520 ENST00000494855 ENST00000460625

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    hsa-miR-3688-3p hsa-miR-409-3p hsa-miR-3065-3p hsa-miR-29c hsa-miR-29a hsa-miR-551b* hsa-miR-410 hsa-miR-4261
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    Additional cDNA sequence: 

    AB002155.1 AB015234.1 AF042331.1 AF082888.1 AK225868.1 AK303924.1 AK313787.1 BC012851.2 
    BC063568.1 CR457084.1 

    5 DOTS entries:

    DT.430097  DT.95328979  DT.120855693  DT.91759021  DT.120855661 

    24/84 AceView cDNA sequences (see all 84):

    CR598921 NM_006952 AW519104 CA313053 AA484313 CB321898 BM666154 C00515 
    BC063568 AB002155 CB240996 CA313343 BU689651 AI982899 CB851619 CR624397 
    BU934907 BG435965 BE208200 BE746224 BG401684 BC012851 AF042331 AW662222 

    GeneLoc Exon Structure

    2 Alternative Splicing Database (ASD) splice patterns (SP) for UPK1B    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9
    SP1:              -                                                   
    SP2:                                                                  


    ECgene alternative splicing isoforms for UPK1B

    (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

    UPK1B 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

    UPK1B expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    4 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    AdiposeThoracic Perivascular AdiposeAdipose
    AdiposeVisceral White AdiposeAdipose
    BoneZeugopod Growth PlateBone
    KidneyMetanephrosKidney
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    Definitive Endoderm (Generation of beta c...)

    See UPK1B Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for UPK1B

    SOURCE GeneReport for Unigene cluster: Hs.271580

    UniProtKB/Swiss-Prot: UPK1B_HUMAN, O75841
    Tissue specificity: Bladder epithelium

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    In Situ
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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 UPK1B gene from 4/12 species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves UPK1B1 uroplakin 1B 71.92(n)
    73.08(a)
      418345  XM_416567.3  XP_416567.3 
    lizard
    (Anolis carolinensis)
    Reptilia UPK1B6
    --
    60(a)
    1 ↔ 1
    3(180877282-180899184)
    African clawed frog
    (Xenopus laevis)
    Amphibia BC041516.12   -- 78.22(n)    BC041516.1 
    zebrafish
    (Danio rerio)
    Actinopterygii upk1a6
    uroplakin 1a
    36(a)
    1 → many
    16(47603449-47615832)


    ENSEMBL Gene Tree for UPK1B (if available)
    TreeFam Gene Tree for UPK1B (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for UPK1B gene
    UPK1A2  
    2 SIMAP similar genes for UPK1B using alignment to 6 protein entries:     UPK1B_HUMAN (see all proteins):
    UPK1A    TSPAN18

    UPK1B 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

    10/616 NCBI SNPs in UPK1B are shown (see all 616    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1852878701,2
    --118890606(+) AGTCTA/CTTGTC 1 -- us2k10--------
    rs1455129031,2
    --118890711(+) TGCCTA/GAGACA 1 -- us2k10--------
    rs76443411,2
    C,F,A,H,--118890804(+) TTGTAC/TGTTCT 1 -- us2k16Minor allele frequency- T:0.04NS EA CSA WA 540
    rs1144168891,2
    --118890855(+) AAAAAT/CAGAAG 1 -- us2k11Minor allele frequency- C:0.01WA 118
    rs1510096011,2
    --118890875(+) GTCACC/TCATAT 1 -- us2k10--------
    rs130793341,2
    C,F,H,--118890981(+) GATTAC/TACAAA 1 -- us2k129Minor allele frequency- N:0.00NS EA NA WA CSA 2888
    rs729550291,2
    C,F,--118891204(+) AGGCCT/ATGTGA 1 -- us2k13Minor allele frequency- A:0.05WA 122
    rs29033011,2
    C,F,H,--118891246(+) TGAAGG/TGGGAG 1 -- us2k123Minor allele frequency- T:0.33NS EA NA WA CSA 2349
    rs1902367101,2
    --118891304(+) AGCCCC/TTTTCA 1 -- us2k10--------
    rs1154923001,2
    --118891321(+) GCCTCA/GGCTAC 1 -- us2k11Minor allele frequency- G:0.01WA 118

    HapMap Linkage Disequilibrium report for UPK1B (118892364 - 118924000 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for UPK1B
         1 CNV: 63565

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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

    UPK1B for disorders           About GeneDecksing

    OMIM gene information: 602380    OMIM disorders: --

    7 diseases for UPK1B:    About MalaCards
    ovarian brenner tumor    vesicoureteral reflux    urinary bladder cancer    hydronephrosis
    transitional cell carcinoma    bladder carcinoma    carcinoma

    2 diseases from the University of Copenhagen DISEASES database for UPK1B:
    Vesicoureteral reflux     Transitional cell carcinoma

    3 Novoseek disease relationships for UPK1B gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    carcinoma transitional cell 66.6 4 9846985 (1), 9818021 (1), 12474225 (1)
    metastasis 2.54 2 9846985 (1), 12474225 (1)
    cancer 0 1 9935153 (1)

    Human Genome Epidemiology (HuGE) Navigator: UPK1B (1 document)

    Export disorders for UPK1B 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)
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    PubMed articles for UPK1B gene, integrated from 9 sources (see all 31):
    (articles sorted by number of sources associating them with UPK1B)
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    1. Uroplakin gene expression by normal and neoplastic human urothelium. (PubMed id 9846985)1, 2, 3, 9 Lobban E.D.... Southgate J. (1998)
    2. Cloning of the human uroplakin 1B cDNA and analysis of its expression in urothelial-tumor cell lines and bladder-carcinoma tissue. (PubMed id 9935153)1, 2, 3, 9 Finch J.L.... Cowled P.A. (1999)
    3. Expression of uroplakin Ib and uroplakin III genes in tissues and peripheral blood of patients with transitional cell carcinoma. (PubMed id 9818021)1, 2, 9 Yuasa T.... Okada Y. (1998)
    4. 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)
    5. Chromosomal localization of the human urothelial 'tetraspan' gene, UPK1B, to 3q13.3-q21 and detection of a TaqI polymorphism. (PubMed id 9073521)1, 2 Finch J.L.... Cowled P.A. (1997)
    6. Methylation of a CpG island within the uroplakin Ib promoter: a possible mechanism for loss of uroplakin Ib expression in bladder carcinoma. (PubMed id 15140401)1, 9 Varga A.E....Cowled P.A. (2004)
    7. Selective interactions of UPIa and UPIb, two members of the transmembrane 4 superfamily, with distinct single transmembrane-domained proteins in differentiated urothelial cells. (PubMed id 8530366)1, 9 Wu X.R....Sun T.T. (1995)
    8. Endometrial biopsy-induced gene modulation: first evidence for the expression of bladder-transmembranal uroplakin Ib in human endometrium. (PubMed id 18355812)1, 9 Kalma Y....Barash A. (2009)
    9. Uroplakin Ib gene transcription in urothelial tumor cells is regulated by CpG methylation. (PubMed id 16354592)1, 9 Cowled P....Jackson P. (2005)
    10. Uroplakin IIIb, a urothelial differentiation marker, dimerizes with uroplakin Ib as an early step of urothelial plaque assembly. (PubMed id 12446744)1, 9 Deng F.-M.... Sun T.-T. (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: 7348 HGNC: 12578 AceView: UPK1B Ensembl:ENSG00000114638 euGenes: HUgn7348
    ECgene: UPK1B H-InvDB: UPK1B

    (According to HUGE)
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    (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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    NameDescription
    PharmGKB entry for UPK1B Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for UPK1B gene:
    Search GeneIP for patents involving UPK1B

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