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RNY5 Gene

RNA gene   GIFtS: 19
GCID: GC12M045572

RNA, Ro-Associated Y5

(Previous names: RNA, Y5 small cytoplasmic (associated with Ro protein))
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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): Y RNA

Quality score for this RNA gene is 6

Aliases
RNA, Ro-Associated Y51 2
Y52 5
RNA, Y5 Small Cytoplasmic (Associated With Ro Protein)1

External Ids:    HGNC: 102481   Entrez Gene: 60902   Ensembl: ENSG000002523107   OMIM: 6018245   
ORGUL members:    fRNAdb10:FR157951 FR184129 FR184129 FR098604 FR157951      
NCBI13:U64824 K01564 K01106 AC073140 S76546 see all 10    
NONCODE14:u4212 u248    
Rfam:RF00019    
RNAdb15:LIT2024    

Export aliases for RNY5 gene to outside databases

Previous GC identifers: GC07U990085 GC07P148029 GC07P148075 GC07P148269 GC07P148639 GC12M045570


(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 RNY5 Gene:
RNY5 (RNA, Ro-associated Y5) is an RNA gene, and is affiliated with the Y RNA 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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Regulatory elements:
   Regulatory transcription factor binding sites in the RNY5 gene promoter:
         TBP   Brachyury   POU3F2 (N-Oct-5a)   POU3F2 (N-Oct-5b)   POU3F2   MEF-2A   S8   FOXO1a   aMEF-2   FOXO1   
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RNY5


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

Entrez Gene cytogenetic band: 7q36   Ensembl cytogenetic band:  7q36.1   HGNC cytogenetic band: 7q36

RNY5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RNY5 gene location

GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12M045572:  view genomic region     (about GC identifiers)

Start:
45,569,742 bp from pter      End:
45,581,252 bp from pter
Size:
11,511 bases      Orientation:
minus strand

1 alternative location:
Chr7+ 148,638,580-148,638,658     
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for RNY5

(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: --


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
RNY: Y RNAs (Ro-associated)

  --

(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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Molecular Function:
     Genatlas biochemistry entry for RNY5:
small cytoplasmic ribonucleoprotein RY5,component of Ro ribunocleoprotein

Animal Models:
   genOway: Develop your customized and physiologically relevant rodent model for RNY5

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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 RNY5
Interactions:

    GeneGlobe Interaction Network for RNY5

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

Browse Tocris compounds for RNY5

6 Novoseek inferred chemical compound relationships for RNY5 gene    About this table
Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
bibp3226 78.2 2 9462897 (1)
matrigel 26.2 1 16891622 (1)
lithium 15.8 2 15631894 (1), 14759559 (1)
sodium 0 2 15631894 (1), 14759559 (1)
calcium 0 1 15337366 (1)
potassium 0 2 15631894 (1), 14759559 (1)



Find genes that share compounds with RNY5           About GenesLikeMe



(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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4 fRNAdb Secondary structures:


1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000516501(misc_RNA)
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1 AceView cDNA sequence:

NR_001571 

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 RNY5:RNAdb

See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --

RNY5 Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
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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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This gene was present in the common ancestor of chordates.

Orthologs for RNY5 gene from Selected species (see all 7)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
zebrafish
(Danio rerio)
Actinopterygii Y_RNA6
Y_RNA6
Y RNA
57(a)
44(a)
many ↔ many
many ↔ many
24(39680975-39681041) ENSDARG00000085886
Zv9_NA427(14595-14701) ENSDARG00000083631
        Species with no ortholog for RNY5

ENSEMBL Gene Tree for RNY5 (if available)
TreeFam Gene Tree for RNY5 (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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Structural Variations
     Database of Genomic Variants (DGV) 1 variation for RNY5:    About this table    
Variant IDTypeSubtypePubMed ID
nsv689CNV Insertion18451855

Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing RNY5
DNA2.0 Custom Variant and Variant Library Synthesis for RNY5

(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.)
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OMIM gene information: 601824    OMIM disorders: --


Find genes that share disorders with RNY5           About GenesLikeMe

1 Novoseek inferred disease relationship for RNY5 gene    About this table

Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
obesity 27.4 1 12220433 (1)


Export disorders for RNY5 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 RNY5 gene, integrated from 10 sources (see all 68):
(articles sorted by number of sources associating them with RNY5)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The human Y4 small cytoplasmic RNA gene is controlled by upstream elements and resides on chromosome 7 with all other hY scRNA genes. (PubMed id 7520568)1, 3 Maraia R.J....Darlington G.J. (Nucleic Acids Res. 1994)
  2. Human Y5 RNA specializes a Ro ribonucleoprotein for 5S ribosomal RNA quality control. (PubMed id 18056422)1, 9 Hogg J.R. and Collins K. (Genes Dev. 2007)
  3. Gene encoding human Ro-associated autoantigen Y5 RNA. (PubMed id 8836182)1, 9 Maraia R....Green E.D. (Nucleic Acids Res. 1996)
  4. ICV NPY Y1 receptor agonist but not Y5 agonist induces torpor-like hypothermia in cold-acclimated Siberian hamsters. (PubMed id 17332160)9 Pelz K.M. and Dark J. (Am. J. Physiol. Regul. Integr. Comp. Physiol. 2007)
  5. Co-expression of neuropeptide Y Y1 and Y5 receptors results in heterodimerization and altered functional properties. (PubMed id 17897631)9 Gehlert D.R....Berglund M.M. (Biochem. Pharmacol. 2007)
  6. Localization of neuropeptide Y receptor Y5 mRNA in the guinea pig brain by in situ hybridization. (PubMed id 14687702)9 Holmberg S.K....Larhammar D. (Regul. Pept. 2004)
  7. L-152,804: orally active and selective neuropeptide Y Y5 receptor antagonist. (PubMed id 10872822)9 Kanatani A....Ihara M. (Biochem. Biophys. Res. Commun. 2000)
  8. Pharmacological characterization and feeding-suppressive property of FMS586 [3-(5,6,7,8-tetrahydro-9-isopropyl-carbazol-3-yl)-1-methyl-1-(2-pyridin-4-yl-ethyl)-urea hydrochloride], a novel, selective, and orally active antagonist for neuropeptide Y Y5 receptor. (PubMed id 16436501)9 Kakui N....Kitaguchi H. (J. Pharmacol. Exp. Ther. 2006)
  9. Conservation of expression of neuropeptide Y5 receptor between human and rat hypothalamus and limbic regions suggests an integral role in central neuroendocrine control. (PubMed id 10575027)9 Nichol K.A....Cunningham A.M. (J. Neurosci. 1999)
  10. Modeling of neuropeptide receptors Y1, Y4, Y5, and docking studies with neuropeptide antagonist. (PubMed id 16494499)9 Jois S.D....Balasubramaniam A. (amp 2006)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Disorders
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: 6090 HGNC: 10248 AceView: RNY5 Ensembl:ENSG00000252310 euGenes: HUgn6090
ECgene: RNY5 H-InvDB: RNY5

(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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NameDescription
PharmGKB entry for RNY5 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 RNY5 gene:
Search GeneIP for patents involving RNY5

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, 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
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