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

URB2 Gene

protein-coding   GIFtS: 46
GCID: GC01P229761

URB2 Ribosome Biogenesis 2 Homolog (S. Cerevisiae)

(Previous name: KIAA0133)
(Previous symbol: KIAA0133)
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
URB2 Ribosome Biogenesis 2 Homolog (S. Cerevisiae)1 2
KIAA01331 2 3
Nucleolar Preribosomal-Associated Protein 11 2
NET102
NPA22
Unhealthy Ribosome Biogenesis Protein 2 Homolog2

External Ids:    HGNC: 289671   Entrez Gene: 98162   Ensembl: ENSG000001357637   UniProtKB: Q141463   

Export aliases for URB2 gene to outside databases

Previous GC identifers: GC01P227829 GC01P200252


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

GeneCards Summary for URB2 Gene: 
URB2 (URB2 ribosome biogenesis 2 homolog (S. cerevisiae)) is a protein-coding gene. Diseases associated with URB2 include buruli ulcer disease, and endocarditis.


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NT_167186.1  NC_018912.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the URB2 gene promoter:
         AhR   ER-alpha   FOXD1   Olf-1   LCR-F1   POU3F2   RORalpha1   AREB6   POU2F1   POU2F1a   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for URB2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat URB2


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

Entrez Gene cytogenetic band: 1q42.13   Ensembl cytogenetic band:  1q42.13   HGNC cytogenetic band: 1q42.13

URB2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
URB2 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P229761:  view genomic region     (about GC identifiers)

Start:
229,761,981 bp from pter      End:
229,795,946 bp from pter
Size:
33,966 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: URB2_HUMAN, Q14146 (See protein sequence)
Recommended Name: Unhealthy ribosome biogenesis protein 2 homolog  
Size: 1524 amino acids; 170544 Da
Subcellular location: Nucleus, nucleolus
Sequence caution: Sequence=BAA09482.3; Type=Erroneous initiation;
Secondary accessions: Q5VYC9

Explore the universe of human proteins at neXtProt for URB2: NX_Q14146

Explore proteomics data for URB2 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q14146

  • URB2 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    URB2 Protein Expression
    REFSEQ proteins: NP_055592.2  
    ENSEMBL proteins: 
     ENSP00000258243   ENSP00000395107  

    Human Recombinant Protein Products for URB2: 
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    Browse Proteins at Cloud-Clone Corp. 

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005730nucleolus IDA--

    URB2 for ontologies           About GeneDecksing



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    Browse CLIAs at Cloud-Clone Corp.


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    1 InterPro protein domain:
     IPR018849 Urb2/Npa2_C

    Graphical View of Domain Structure for InterPro Entry Q14146

    ProtoNet protein and cluster: Q14146


    URB2 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for URB2 
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    Inhib. RNA
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for URB2


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for URB2

    STRING Interaction Network Preview (showing 4 interactants - click image to see more details)

    4 Interacting proteins for URB2 (Q141463 ENSP000002582434) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    LMNAP025453, ENSP000003572834I2D: score=3 STRING: ENSP00000357283
    LMNB1P207003, ENSP000002613664I2D: score=2 STRING: ENSP00000261366
    UBCENSP000003448184STRING: ENSP00000344818
    SIRT7ENSP000003294664STRING: ENSP00000329466
    About this table

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, 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 URB2

    Search CenterWatch for drugs/clinical trials and news about URB2

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, 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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for URB2 gene: 
    NM_014777.2  

    Unigene Cluster for URB2:

    URB2 ribosome biogenesis 2 homolog (S. cerevisiae)
    Hs.533628  [show with all ESTs]
    Unigene Representative Sequence: NM_014777
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000258243(uc001hts.1 uc009xfd.1) ENST00000434387
    miRNA
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    1 QIAGEN miScript miRNA Assays for microRNA that regulate URB2:
    hsa-miR-137
    SwitchGear 3'UTR luciferase reporter plasmidURB2 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for URB2
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat URB2
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    OriGene ORF clones in mouse, rat for URB2
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    GenScript: all cDNA clones in your preferred vector: URB2 (NM_014777)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for URB2
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat URB2
    Primer
    Products:
        
    OriGene qSTAR qPCR primer pairs in human, mouse for URB2
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat URB2
      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat URB2
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat URB2

    Additional mRNA sequence: 

    AK291013.1 BC059381.1 BC114559.1 BC114963.1 D50923.2 

    5 DOTS entries:

    DT.309708  DT.95362257  DT.100754267  DT.91675413  DT.95318951 

    24/60 AceView cDNA sequences (see all 60):

    BC059381 BX281142 BG149303 BX281526 D50923 BM710410 BM470125 CA488495 
    BQ049193 CA438458 BU175924 AA852848 BM931343 BE890699 AA599694 AI440196 
    BQ423151 BG114492 AI362314 BM472031 AI286157 BF434926 AW294196 BG505261 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for URB2    About this scheme

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


    ECgene alternative splicing isoforms for URB2

    (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

    URB2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GTCTGAAAGA
    URB2 Expression
    About this image


    See URB2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for URB2

    SOURCE GeneReport for Unigene cluster: Hs.533628
        SABiosciences Custom PCR Arrays for URB2
    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for URB2
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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat URB2
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for URB2

    (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 URB2 gene from 5/12 species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Urb21 , 5 URB2 ribosome biogenesis 2 homolog (S. cerevisiae)1, 5 77.72(n)1
    71.91(a)1
      8 (72.33 cM)5
    3820381  NM_001029876.11  NP_001025047.11 
     1240215085 
    chicken
    (Gallus gallus)
    Aves URB21 URB2 ribosome biogenesis 2 homolog (S. cerevisiae) 60.04(n)
    52.94(a)
      421539  XM_419580.3  XP_419580.2 
    lizard
    (Anolis carolinensis)
    Reptilia URB26
    Uncharacterized protein
    49(a)
    1 ↔ 1
    1(222338190-222366674)
    African clawed frog
    (Xenopus laevis)
    Amphibia BM261840.12   -- 72.7(n)    BM261840.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC5702671 uncharacterized LOC570267 49.74(n)
    38.72(a)
      570267  NM_001123301.2  NP_001116773.2 


    ENSEMBL Gene Tree for URB2 (if available)
    TreeFam Gene Tree for URB2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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

    10/795 SNPs in URB2 are shown (see all 795)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs612493831,2
    C,F--229763799(+) TAGACG/CAGACT 1 -- int11Minor allele frequency- C:0.50WA 2
    rs1826356901,2
    --229763848(+) ATATAA/TTATAT 1 -- int10--------
    rs1887769791,2
    --229763881(+) ATATAC/TAATAT 1 -- int10--------
    rs1996992861,2
    --229763883(+) ATATA-/ATATATA 1 -- int10--------
    rs1472213461,2
    --229763918(+) AGTATA/GTATGT 1 -- int10--------
    rs711737531,2
    C--229764016(+) atataTATTATACATATACATA
    TTATATATGTATATA
    /-
    aatta
    1 -- int11Minor allele frequency- -:0.00NA 2
    rs1907812891,2
    --229764146(+) GCCTGA/GGCGAT 1 -- int10--------
    rs761159201,2
    C,F--229764152(+) GCGATA/GGAGCA 1 -- int11Minor allele frequency- G:0.02WA 118
    rs38203601,2
    C,F,H--229764211(+) TTTGTT/GTGGAG 1 -- int118Minor allele frequency- G:0.24NS EA WA NA CSA 2340
    rs753515921,2
    F--229764299(+) CATTGA/CTAGCT 1 -- int11Minor allele frequency- C:0.01EA 120

    HapMap Linkage Disequilibrium report for URB2 (229761981 - 229795946 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for URB2:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv508698CNV Loss20534489
    esv22567CNV Loss19812545

    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    2 diseases for URB2:    About MalaCards
    buruli ulcer disease    endocarditis

    1 disease from the University of Copenhagen DISEASES database for URB2:
    Buruli ulcer disease

    URB2 for disorders           About GeneDecksing

    Genetic Association Database (GAD): URB2

    Export disorders for URB2 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 URB2 gene, integrated from 9 sources (see all 21):
    (articles sorted by number of sources associating them with URB2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Prediction of the coding sequences of unidentified human genes. IV. The coding sequences of 40 new genes (KIAA0121-KIAA0160) deduced by analysis of cDNA clones from human cell line KG-1. (PubMed id 8590280)1, 2, 3 Nagase T....Nomura N. (1995)
    2. Nucleolar proteome dynamics. (PubMed id 15635413)1, 2 Andersen J.S....Mann M. (2005)
    3. Bcl2-associated Athanogene 3 Interactome Analysis Reve als a New Role in Modulating Proteasome Activity. (PubMed id 23824909)1 Chen Y....Ge F. (2013)
    4. Genome-wide and gene-centric analyses of circulating m yeloperoxidase levels in the charge and care consortia. (PubMed id 23620142)1 Reiner A.P....Allayee H. (2013)
    5. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    6. Functional proteomics establishes the interaction of S IRT7 with chromatin remodeling complexes and expands its role in regulation of R NA polymerase I transcription. (PubMed id 22586326)1 Tsai Y.C....Cristea I.M. (2012)
    7. 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)
    8. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    9. Ubiquitin ligase substrate identification through qua ntitative proteomics at both the protein and peptide levels. (PubMed id 21987572)1 Lee K.A....Doedens J.R. (2011)
    10. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 9816 HGNC: 28967 AceView: KIAA0133 Ensembl:ENSG00000135763 euGenes: HUgn9816
    ECgene: URB2 H-InvDB: URB2

    (According to HUGE)
    About This Section
    HUGE: KIAA0133

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for URB2 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for URB2 gene:
    Search GeneIP for patents involving URB2

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


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