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LINC00471 Gene

RNA gene GIFtS: 29
GCID: GC02M232374

Long Intergenic Non-Protein Coding RNA 471

(Previous name: chromosome 2 open reading frame 52)
(Previous symbol: C2orf52)

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(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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Subcategory (RNA class): lncRNA

Quality score for this RNA gene is 3

Aliases
Long Intergenic Non-Protein Coding RNA 471¹ ²
C2orf52¹ ² ³
Chromosome 2 Open Reading Frame 52¹

External Ids:	HGNC: 28668¹	Entrez Gene: 151477²	Ensembl: ENSG00000181798⁷	UniProtKB: Q8N535³

ORGUL members:

Export aliases for LINC00471 gene to outside databases

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for LINC00471 Gene:

LINC00471 (long intergenic non-protein coding RNA 471) is an RNA gene, and is affiliated with the lncRNA class.

(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_000002.11 NC_018913.2 NT_005403.18

Regulatory elements:

Search for regulatory transcription factor binding sites for LINC00471
Other transcription factors

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Epigenetics:

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat LINC00471

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

Entrez Gene cytogenetic band: 2q37.1 Ensembl cytogenetic band: 2q37.1 HGNC cytogenetic band: 2q37.1

LINC00471 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
LINC00471 gene location

GeneLoc information about chromosome 2 GeneLoc Exon Structure

GeneLoc location for GC02M232374: view genomic region (about GC identifiers)

Start:	232,373,137 bp from pter	End:	232,379,050 bp from pter
Size:	5,914 bases	Orientation:	minus strand

ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for LINC00471

(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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UniProtKB/Swiss-Prot: CB052_HUMAN, Q8N535 (See protein sequence)

Recommended Name: Putative uncharacterized protein encoded by LINC00471

Size: 108 amino acids; 12106 Da

Caution: Product of a dubious CDS prediction. May be a non-coding RNA

Explore the universe of human proteins at neXtProt for LINC00471: NX_Q8N535

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:

LNCRNA: Long non-coding RNAs

ProtoNet protein and cluster: Q8N535

(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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Phenotypes:
1 GenomeRNAi human phenotype for LINC00471:

Low eccentricity cells

Animal Models:

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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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(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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Custom Pathway & Disease-focused RT² Profiler PCR Arrays for LINC00471
Interactions:

Search GeneGlobe Interaction Network for LINC00471

(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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Browse Tocris compounds for LINC00471 (CB052)

(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,
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REFSEQ mRNAs for LINC00471 gene:

NM_173513.2

Unigene Cluster for LINC00471:

Long intergenic non-protein coding RNA 471

Hs.375211 [show with all ESTs]

Unigene Representative Sequence: BC033054

1 Ensembl transcript including schematic representation, and UCSC links where relevant:

ENST00000313064(processed_transcript)

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Additional mRNA sequence:

BC033054.2 NR_024079.1

2 DOTS entries:

DT.100012651 DT.97775881

3 AceView cDNA sequences:

BC033054 NM_173513 BI548000

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™, 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 LINC00471:none

LINC00471 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: CCTAGCCCAG

About this image

LINC00471 Protein expression data from MOPED¹, PaxDb² and MaxQB³:

--

SOURCE GeneReport for Unigene cluster: Hs.375211

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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)
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--

ENSEMBL Gene Tree for LINC00471 (if available)
TreeFam Gene Tree for LINC00471 (if available)

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
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(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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SNP ID	Valid	Clinical significance	Chr 2 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs181390526^1,2		--	232372675(+)	`GCCACC/TATACC`	1	--	int¹		0	--	--	--	--
rs7566054^1,2	C,A	--	232372810(+)	`tcctgC/Tctcag`	1	--	int¹		0	--	--	--	--
rs184876043^1,2		--	232372818(+)	`CAGCCA/TCCCAA`	1	--	int¹		0	--	--	--	--
rs189338688^1,2	C	--	232372844(+)	`GGCACA/GCACCA`	1	--	int¹		0	--	--	--	--
rs180941972^1,2		--	232372949(+)	`TCAGCC/TTCCCA`	1	--	int¹		0	--	--	--	--
rs184905562^1,2		--	232372991(+)	`GCCCAC/TATACC`	1	--	int¹		0	--	--	--	--
rs117625187^1,2	C,F	--	232373013(+)	`TTAATT/ATCTTG`	1	--	int¹		1		EA	120
rs146453804^1,2		--	232373042(+)	`CTGTTA/GCCCAA`	1	--	int¹		0	--	--	--	--
rs76870598^1,2	C	--	232373255(+)	`CAAGAA/CAGAAA`	1	--	nc-transcript-variant		0	--	--	--	--
rs7580705^1,2	C,F,A,H	--	232373296(+)	`CTACCT/CGCGTG`	1	--	nc-transcript-variantese³		21		NS EA NA WA	2760

HapMap Linkage Disequilibrium report for LINC00471 (232373137 - 232379050 bp)

Structural Variations
Database of Genomic Variants (DGV) 3 variations for LINC00471: About this table

Variant ID	Type	Subtype	PubMed ID
nsv3203	CNV	Loss	18451855
nsv834567	CNV	Gain	17160897
nsv875966	CNV	Gain	21882294

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(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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(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 LINC00471 gene integrated from 10 sources:
(articles sorted by number of sources associating them with LINC00471)

Utopia: connect your pdf to the dynamic
world of online information

Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)^{1, 3} Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture. (PubMed id 23563607)¹ Berndt S.I....Ingelsson E. (Nat. Genet. 2013)
Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)² Hillier L.W.... Wilson R.K. (Nature 2005)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)² Gerhard D.S.... Malek J. (Genome Res. 2004)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
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)
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Entrez Gene: 151477	HGNC: 28668	AceView: MGC43122	Ensembl:ENSG00000181798	euGenes: HUgn151477
ECgene: LINC00471	H-InvDB: LINC00471

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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Name	Description
PharmGKB entry for LINC00471	Pharmacogenomics, SNPs, Pathways

Intellectual Property for LINC00471 gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

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Patent Information for LINC00471 gene:
Search GeneIP for patents involving LINC00471

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

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LINC00471 Gene

Long Intergenic Non-Protein Coding RNA 471

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LINC00471 Gene

Long Intergenic Non-Protein Coding RNA 471

Aliasesfor LINC00471 gene

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LINC00471 Human Recombinant Protein Products:

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