UCA1 Gene

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)
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Previous GC identifers: GC19U900573 GC19P015511

Summaries
for UCA1 gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:

NC_000019.9  NC_018930.2  NT_011295.12  

SwitchGear Promoter luciferase reporter plasmid: UCA1 promoter sequence

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat UCA1

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


GeneLoc information about chromosome 19         GeneLoc Exon Structure

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

Proteins
for UCA1 gene

(According to ¹UniProtKB, HORDE, ²neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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Domains /
Families
for UCA1 gene

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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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, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Localization
for UCA1 gene

(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Pathways & Interactions
for UCA1 gene

(SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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Drugs & Compounds
for UCA1 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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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,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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Unigene Cluster for UCA1:

miRNA Products:		Block miRNA regulation of human, mouse, rat UCA1 using miScript Target Protectors
		Search for qRT-PCR Assays for microRNAs that regulate UCA1
		SwitchGear 3'UTR luciferase reporter plasmid: UCA1 3' UTR sequence

Inhib. RNA Products:		Browse OriGene RNAi
		Predesigned siRNA for gene silencing in human, mouse, rat UCA1

Clone Products:		Browse OriGene untagged/tagged cDNA clones in CMV expression vector OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector: UCA1 (NM_000147)
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for UCA1
		Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat UCA1

Primer Products:		OriGene qSTAR qPCR primer pairs in human, mouse for UCA1
		Pre-validated RT2 qPCR Primer Assay in human, mouse / rat UCA1
		QuantiTect SYBR Green Assays in human, mouse, rat UCA1
		QuantiFast Probe-based Assays in human, mouse, rat UCA1

Additional mRNA sequence: 

6 DOTS entries:

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™, Protein expression images according to data from SPIRE ¹MOPED, ²PaxDb, and ³MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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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

About this image

Primer Products:		OriGene qSTAR qPCR primer pairs in human, mouse for UCA1
		Pre-validated RT2 qPCR Primer Assay in human, mouse / rat UCA1
		QuantiTect SYBR Green Assays in human, mouse, rat UCA1
		QuantiFast Probe-based Assays in human, mouse, rat UCA1

In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for UCA1

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)
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Paralogs
for UCA1 gene

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
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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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for UCA1 (see all 231)    About this table

Genomic Data					Transcription Related Data				Allele Frequencies
SNP ID	Valid	Clinical significance	Chr 19 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	--	--	--	-1st2nd3rd	--	--	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd
rs1496634731,2		--	15937993(+)	CAGGTA/GCCAGG	1	--	us2k1		0	--	--	--	--
rs1454773391,2	C	--	15938261(+)	ACACGC/TCATCT	1	--	us2k1		0	--	--	--	--
rs1859204291,2		--	15938678(+)	ATATAG/TTCTAT	1	--	us2k1		0	--	--	--	--
rs1395347221,2		--	15938682(+)	ATTCTA/GTCTTG	1	--	us2k1		0	--	--	--	--
rs1450971511,2		--	15938770(+)	CACACC/TTGTAA	1	--	us2k1		0	--	--	--	--
rs621060931,2	C	--	15938819(+)	GAGCCC/TGGGAG	1	--	us2k1		4		NA WA EA	360
rs1909418671,2		--	15938865(+)	ACTCTA/GTTATA	1	--	us2k1		0	--	--	--	--
rs1475917451,2	C	--	15938900(+)	TCAAGC/GTGACA	1	--	us2k1		0	--	--	--	--
rs774019471,2	F	--	15938939(+)	ATACCG/AGCAAG	1	--	us2k1		1		WA	118
rs1840273561,2		--	15939051(+)	ACTGCA/GTTGTG	1	--	us2k1		0	--	--	--	--

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

Structural Variations
     Database of Genomic Variants (DGV) 4 variations for UCA1:    About this table    

Variant ID	Type	Subtype	PubMed ID
esv2671181	CNV	Deletion	23128226
esv2718244	CNV	Deletion	23290073
nsv833766	CNV	Loss	17160897
nsv911139	CNV	Gain	21882294

Site Specific Mutation Identification with PCR Assays

Search QIAGEN SeqTarget long-range PCR primers for resequencing UCA1

DNA2.0 Custom Variant and Variant Library Synthesis for UCA1

Disorders / Diseases
for UCA1 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.)
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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)
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PubMed articles for UCA1 gene, integrated from 10 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. (World J. Gastroenterol. 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. (FEBS Lett. 2008)
3. Induction of drug resistance and transformation in human cancer cells by the noncoding RNA CUDR. (PubMed id 17416635)^{1, 3} Tsang W.P....Kwok T.T. (RNA 2007)
4. Long non-coding RNA UCA1a(CUDR) promotes proliferation and tumorigenesis of bladder cancer. (PubMed id 22576688)¹ Wang Y....Li X. (Int. J. Oncol. 2012)
5. Long non-coding RNA UCA1 regulated cell cycle distribution via CREB through PI3-K dependent pathway in bladder carcinoma cells. (PubMed id 22285928)¹ Yang C....Chen W. (Gene 2012)
6. Activity-based chemical proteomics accelerates inhibitor development for deubiquitylating enzymes. (PubMed id 22118674)¹ Altun M....Kessler B.M. (amp 2011)
7. [Cellular localization and tissue expression pattern of UCA1, a non-coding RNA]. (PubMed id 20117985)¹ Xie X.J....Chen W. (Nan Fang Yi Ke Da Xue Xue Bao 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. (Clin. Cancer Res. 2006)
9. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)¹ Ota T.... Sugano S. (Nat. Genet. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)

External Searches for UCA1 gene

Genome Databases showing UCA1 gene

Other Databases showing UCA1 gene

Specialized Databases showing UCA1 gene

Products
for UCA1 gene

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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