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

UCA1 Gene

RNA gene   GIFtS: 31
GCID: GC19P015939

Urothelial Cancer Associated 1 (Non-Protein Coding)
  See related diseases
at
MalaCards
 

Aliases
for UCA1 gene

(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
Subcategory (RNA class): lncRNA

Quality score for this RNA gene is 10

Aliases
Urothelial Cancer Associated 1 (Non-Protein Coding)1 2     LINC001782
Cancer Up-Regulated Drug Resistant1     NCRNA001782
Long Intergenic Non-Protein Coding RNA 1781     UCAT12
CUDR2     F5

External Ids:    HGNC: 371261   Entrez Gene: 6529952   Ensembl: ENSG000002140497   OMIM: 6122805   UniProtKB: Q2VCE54   
ORGUL members:    fRNAdb10:FR407590 FR006815      
H-InvDB12:HIT000017268    
NCBI13:AK092401 DQ343132    
NONCODE14:n377754 n376250 n376439 n376249 n343049      
RNAdb15:LIT3336    

Export aliases for UCA1 gene to outside databases

Previous GC identifers: GC19U900573 GC19P015511


Summaries
for UCA1 gene

(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 UCA1 Gene:
This gene represents a long non-coding RNA. It plays a regulatory role in bladder cancer cell proliferation.
Several genes can be regulated by this gene, and the most important one is the CREB (cAMP responsive element
binding protein) gene, which encodes a transcriptional factor and affects the oncogenesis. (provided by RefSeq,
Mar 2012)

GeneCards Summary for UCA1 Gene: 
UCA1 (urothelial cancer associated 1 (non-protein coding)) is an RNA gene, and is affiliated with the lncRNA class. Diseases associated with UCA1 include fucosidosis, and bladder carcinoma.



fRNAdb sequence ontologies for UCA1 - the ORGUL cluster for this gene includes several descriptions:
ncRNA - An RNA transcript that does not encode for a protein rather the RNA molecule is the gene product.
mature_transcript - A transcript which has undergone the necessary modifications, if any, for its function. In eukaryotes this includes, for example, processing of introns, cleavage, base modification, and modifications to the 5' and/or the 3' ends, other than addition of bases. In bacteria functional mRNAs are usually not modified.

Genomic Views
for UCA1 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000019.9  NT_011295.11  NC_018930.2  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for UCA1
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat UCA1


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

Entrez Gene cytogenetic band: 19p13.12   Ensembl cytogenetic band:  19p13.12   HGNC cytogenetic band: 19p13.12

UCA1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
UCA1 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P015939:  view genomic region     (about GC identifiers)

Start:
 15,939,757 bp from pter      End:
 15,947,130 bp from pter
Size:
 7,374 bases      Orientation:
 plus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for UCA1

Proteins
for UCA1 gene

(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/TrEMBL: Q2VCE5 (See protein sequence)
Recommended Name: UCA1 protein  
Size: 60 amino acids; 6544 Da

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q2VCE5

    • UCA1 Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --

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    Protein Domains /
    Families
    for UCA1 gene

    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    		 HGNC Gene Families: 
    LNCRNA: Long non-coding RNAs

    ProtoNet protein and cluster: Q2VCE5


    Function
    for UCA1 gene

    (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:
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    Pathways & Interactions
    for UCA1 gene

    (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 UCA1

    Drugs & Compounds
    for UCA1 gene

    (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
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    Transcripts
    for UCA1 gene

    (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,
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    About This Section

    Unigene Cluster for UCA1:

    Urothelial cancer associated 1 (non-protein coding)
    Hs.644234  [show with all ESTs]
    Unigene Representative Sequence: NR_015379
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000397381(lincRNA)(uc002nbr.3) ENST00000589333(lincRNA) ENST00000600160(lincRNA)
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    Additional mRNA sequence: 

    AK024303.1 AK092401.1 BC005351.1 BC017567.1 BC022824.1 BC055082.1 BC070340.1 BC107722.1 
    DQ249310.1 DQ343132.1 EU334869.1 GU357550.1 GU799561.1 GU799562.1 GU799563.1 GU799564.1 
    GU799565.1 HQ833208.1 HQ833209.1 NR_015379.3 

    6 DOTS entries:

    DT.92042969  DT.100033619  DT.91689580  DT.100817224  DT.86853179  DT.95289769 

    GeneLoc Exon Structure


    Expression
    for UCA1 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

    Expression evidence for UCA1:RNAdb

    UCA1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AAATGGACAA
    UCA1 Expression
    About this image


    Genevestigator expression for UCA1

    SOURCE GeneReport for Unigene cluster: Hs.644234
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    Orthologs
    for UCA1 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
    		   --

    ENSEMBL Gene Tree for UCA1 (if available)
    TreeFam Gene Tree for UCA1 (if available)

    Paralogs
    for UCA1 gene

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

    Genomic Variants
    for UCA1 gene

    (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

    10/231 SNPs in UCA1 are shown (see all 231)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 19 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1496634731,2
    		--15937993(+) CAGGTA/GCCAGG 1 -- us2k10--------
    rs1454773391,2
    		C--15938261(+) ACACGC/TCATCT 1 -- us2k10--------
    rs1859204291,2
    		--15938678(+) ATATAG/TTCTAT 1 -- us2k10--------
    rs1395347221,2
    		--15938682(+) ATTCTA/GTCTTG 1 -- us2k10--------
    rs1450971511,2
    		--15938770(+) CACACC/TTGTAA 1 -- us2k10--------
    rs621060931,2
    		C--15938819(+) GAGCCC/TGGGAG 1 -- us2k14Minor allele frequency- T:0.05NA WA EA 360
    rs1909418671,2
    		--15938865(+) ACTCTA/GTTATA 1 -- us2k10--------
    rs1475917451,2
    		C--15938900(+) TCAAGC/GTGACA 1 -- us2k10--------
    rs774019471,2
    		F--15938939(+) ATACCG/AGCAAG 1 -- us2k11Minor allele frequency- A:0.03WA 118
    rs1840273561,2
    		--15939051(+) ACTGCA/GTTGTG 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for UCA1 (15939757 - 15947130 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for UCA1:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2671181CNV Deletion23128226
    esv2718244CNV Deletion23290073
    nsv833766CNV Loss17160897
    nsv911139CNV Gain21882294

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    Disorders / Diseases
    for UCA1 gene

    (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
    		 OMIM gene information: 612280   
    OMIM disorders: 230000  
    2 diseases for UCA1:    About MalaCards
    fucosidosis    bladder carcinoma

    1 disease from the University of Copenhagen DISEASES database for UCA1:
    Urinary bladder cancer

    UCA1 for disorders           About GeneDecksing

    Human Genome Epidemiology (HuGE) Navigator: UCA1 (1 document)

    Export disorders for UCA1 gene to outside databases

    Publications
    for UCA1 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 UCA1 gene, integrated from 9 sources (see all 13):
    (articles sorted by number of sources associating them with UCA1)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Analysis of long non-coding RNA expression profiles in gastric cancer. (PubMed id 23801869)1, 3 Cao W.J....Zhang Z.Y. (2013)
    2. UCA1, a non-protein-coding RNA up-regulated in bladder carcinoma and embryo, influencing cell growth and promoting invasion. (PubMed id 18501714)1, 3 Wang F....Chen W. (2008)
    3. Induction of drug resistance and transformation in hu man cancer cells by the noncoding RNA CUDR. (PubMed id 17416635)1, 3 Tsang W.P....Kwok T.T. (2007)
    4. Long non-coding RNA UCA1a(CUDR) promotes proliferation and tumorigenesis of bladder cancer. (PubMed id 22576688)1 Wang Y....Li X. (2012)
    5. Long non-coding RNA UCA1 regulated cell cycle distribu tion via CREB through PI3-K dependent pathway in bladder carcinoma cells. (PubMed id 22285928)1 Yang C....Chen W. (2012)
    6. Activity-based chemical proteomics accelerates inhibi tor development for deubiquitylating enzymes. (PubMed id 22118674)1 Altun M....Kessler B.M. (2011)
    7. [Cellular localization and tissue expression pattern of UCA1, a non-coding RNA]. (PubMed id 20117985)1 Xie X.J....Chen W. (2010)
    8. Rapid identification of UCA1 as a very sensitive and specific unique marker for human bladder carcinoma. (PubMed id 16914571)1 Wang X.S....Chen W.F. (2006)
    9. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (2004)
    10. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)

    External Searches for UCA1 gene

    (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)

    Genome Databases showing UCA1 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 652995 HGNC: 37126 Ensembl:ENSG00000214049 euGenes: HUgn652995 ECgene: UCA1
    H-InvDB: UCA1

    Other Databases showing UCA1 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing UCA1 gene

    (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 UCA1 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for UCA1 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for UCA1 gene:
    Search GeneIP for patents involving UCA1

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



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    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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