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RORA Gene

protein-coding   GIFtS: 66
GCID: GC15M060780

RAR-Related Orphan Receptor A

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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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Aliases
RAR-Related Orphan Receptor A1 2     ROR32
Nuclear Receptor RZR-Alpha2 3     RZR-ALPHA2
Nuclear Receptor Subfamily 1 Group F Member 12 3     Nuclear Receptor ROR-Alpha2
NR1F12 3     Retinoic Acid Receptor-Related Orphan Receptor Alpha2
RZRA2 3     Retinoid-Related Orphan Receptor Alpha2
ROR-alpha2     Thyroid Hormone Nuclear Receptor Alpha Variant 42
ROR12     Transcription Factor RZR-Alpha2
ROR22     Retinoid-Related Orphan Receptor-Alpha3

External Ids:    HGNC: 102581   Entrez Gene: 60952   Ensembl: ENSG000000696677   OMIM: 6008255   UniProtKB: P353983   

Export aliases for RORA gene to outside databases

Previous GC identifers: GC15M056349 GC15M053837 GC15M058368 GC15M058505 GC15M058576 GC15M037602


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for RORA Gene:
The protein encoded by this gene is a member of the NR1 subfamily of nuclear hormone receptors. It can bind as a
monomer or as a homodimer to hormone response elements upstream of several genes to enhance the expression of
those genes. The encoded protein has been shown to interact with NM23-2, a nucleoside diphosphate kinase involved
in organogenesis and differentiation, as well as with NM23-1, the product of a tumor metastasis suppressor
candidate gene. Also, it has been shown to aid in the transcriptional regulation of some genes involved in
circadian rhythm. Four transcript variants encoding different isoforms have been described for this gene.
(provided by RefSeq, Feb 2014)

GeneCards Summary for RORA Gene:
RORA (RAR-related orphan receptor A) is a protein-coding gene. Diseases associated with RORA include lown-ganong-levine syndrome, and hypoalphalipoproteinemia. GO annotations related to this gene include steroid hormone receptor activity and sequence-specific DNA binding transcription factor activity. An important paralog of this gene is VDR.

UniProtKB/Swiss-Prot: RORA_HUMAN, P35398
Function: Orphan nuclear receptor. Binds DNA as a monomer to hormone response elements (HRE) containing a single
core motif half-site preceded by a short A-T-rich sequence. This isomer binds to the consensus sequence
5'-[AT][TA]A[AT][CGT]TAGGTCA-3'. Regulates a number of genes involved in lipid metabolism such as apolipoproteins
AI, APOA5, CIII, CYP71 and PPARgamma, in cerebellum and photoreceptor development including PCP2, OPN1SW, OPN1SM
AND ARR3, in circadian rhythm with BMAL1, and skeletal muscle development with MYOD1. Possible receptor for
cholesterol or one of its derivatives

Gene Wiki entry for RORA (RAR-related orphan receptor alpha) 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:
NC_000015.10  NT_010194.18  NC_018926.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the RORA gene promoter:
         CREB   AP-1   p300   deltaCREB   HNF-4alpha1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): RORA promoter sequence
   Search Chromatin IP Primers for RORA

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


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

Entrez Gene cytogenetic band: 15q22.2   Ensembl cytogenetic band:  15q22.2   HGNC cytogenetic band: 15q21-q22

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

GeneLoc information about chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15M060780:  view genomic region     (about GC identifiers)

Start:
60,780,483 bp from pter      End:
61,521,518 bp from pter
Size:
741,036 bases      Orientation:
minus strand

(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, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: RORA_HUMAN, P35398 (See protein sequence)
Recommended Name: Nuclear receptor ROR-alpha  
Size: 556 amino acids; 63036 Da
Subunit: Monomer. Interacts (via the DNA-binding domain) with HIF1; the interaction enhances HIF1A transcription
under hypoxia through increasing protein stability
2 PDB 3D structures from and Proteopedia for RORA:
1N83 (3D)        1S0X (3D)    
Secondary accessions: P35397 P35399 P45445 Q495X4 Q96H83
Alternative splicing: 4 isoforms:  P35398-1   P35398-2   P35398-3   P35398-4   (Ref.2 (AAA02963) sequence is in conflict in position: 8:A->E)

Explore the universe of human proteins at neXtProt for RORA: NX_P35398

Explore proteomics data for RORA at MOPED

Post-translational modifications: 

  • Phosphorylation by PKC in neurons inhibits transcriptional activity. Phosphorylated on Thr-216 by ERK2 in vitro1
  • Sumoylated by SENP1 and SENP2. Sumoylation, promoted by PIAS2, PIAS3, PIASy but not PIAS1, enhances the
    transcriptional activity. Desumoylated by SENP11
  • Ubiquitinated. Ubiquitination is required for efficient transcriptional activity and is prevented by Hairless1
  • Isoform Alpha-1: monomethylated at Lys-38 by EZH2, this creates a degron recognized by a DCAF1/DDB1/CUL4 E3
    ubiquitin ligase complex1
  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See RORA Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (4 alternative transcripts): 
    NP_002934.1  NP_599022.1  NP_599023.1  NP_599024.1  

    ENSEMBL proteins: 
     ENSP00000335087   ENSP00000309753   ENSP00000261523   ENSP00000402971   ENSP00000449482  
     ENSP00000453322  
    Reactome Protein details: P35398

    RORA Human Recombinant Protein Products:

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    OriGene MassSpec for RORA
    OriGene Custom Protein Services for RORA
    GenScript Custom Purified and Recombinant Proteins Services for RORA
    Novus Biologicals RORA Proteins
    Novus Biologicals RORA Lysates
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp.

    RORA Antibody Products:

    Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    R&D Systems Antibodies for RORA (ROR alpha/NR1F1)
    OriGene Antibodies for RORA
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    Novus Biologicals RORA Antibodies
    Abcam antibodies for RORA (Q58EY0, P35398)
    Browse Antibodies at Cloud-Clone Corp.
    ThermoFisher Antibody for RORA
    LSBio Antibodies in human, mouse, rat for RORA

    RORA Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for RORA
    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs at Cloud-Clone Corp.
    Browse CLIAs at Cloud-Clone Corp.


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

    IUPHAR Guide to PHARMACOLOGY protein family classification: RAR-related orphan receptor-alpha
    1F. RAR-related orphan receptors

    Selected InterPro protein domains (see all 6):
     IPR013088 Znf_NHR/GATA
     IPR008946 Nucl_hormone_rcpt_ligand-bd
     IPR000536 Nucl_hrmn_rcpt_lig-bd_core
     IPR001628 Znf_hrmn_rcpt
     IPR001723 Str_hrmn_rcpt

    Graphical View of Domain Structure for InterPro Entry P35398

    ProtoNet protein and cluster: P35398

    2 Blocks protein domains:
    IPB001723 Steroid hormone receptor signature
    IPB003079 Nuclear receptor ROR family (1F nuclear receptor) signature


    UniProtKB/Swiss-Prot: RORA_HUMAN, P35398
    Similarity: Belongs to the nuclear hormone receptor family. NR1 subfamily
    Similarity: Contains 1 nuclear receptor DNA-binding domain


    RORA 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,
    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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: RORA_HUMAN, P35398
    Function: Orphan nuclear receptor. Binds DNA as a monomer to hormone response elements (HRE) containing a single
    core motif half-site preceded by a short A-T-rich sequence. This isomer binds to the consensus sequence
    5'-[AT][TA]A[AT][CGT]TAGGTCA-3'. Regulates a number of genes involved in lipid metabolism such as apolipoproteins
    AI, APOA5, CIII, CYP71 and PPARgamma, in cerebellum and photoreceptor development including PCP2, OPN1SW, OPN1SM
    AND ARR3, in circadian rhythm with BMAL1, and skeletal muscle development with MYOD1. Possible receptor for
    cholesterol or one of its derivatives
    Enzyme regulation: Activated by CaMK4
    Induction: By hypoxia and melatonin

         Genatlas biochemistry entry for RORA:
    RAR related orphan receptor alpha,ligand activated transcription factor no known ligand,steroid/thyroid nuclear
    receptor superfamily,interacting with EP300 and MYOD1 in myogenesis

         Gene Ontology (GO): Selected molecular function terms (see all 12):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001222transcription corepressor binding IPI9328355
    GO:0001223transcription coactivator binding IPI10478845
    GO:0003677DNA binding IDA11053433
    GO:0003700sequence-specific DNA binding transcription factor activity IDA11053433
    GO:0003707steroid hormone receptor activity IEA--
         
    RORA for ontologies           About GeneDecksing


    Phenotypes:
         15 MGI mutant phenotypes (inferred from 6 alleles(MGI details for Rora):
     behavior/neurological  cardiovascular system  cellular  growth/size/body  hematopoietic system 
     homeostasis/metabolism  immune system  integument  mortality/aging  muscle 
     nervous system  no phenotypic analysis  reproductive system  respiratory system  taste/olfaction 

    RORA for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out Roratm1Vgi for RORA

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for RORA
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for RORA

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for RORA
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for RORA

    miRNA
    Products:
        
    miRTarBase miRNAs that target RORA:
    hsa-mir-92a-3p (MIRT048959), hsa-mir-335-5p (MIRT017642), hsa-mir-106b-5p (MIRT020475)

    Block miRNA regulation of human, mouse, rat RORA using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate RORA (see all 342):
    hsa-miR-124* hsa-miR-579 hsa-miR-576-3p hsa-miR-193a-3p hsa-miR-520f hsa-miR-502-3p hsa-miR-3916 hsa-miR-3162-5p
    SwitchGear 3'UTR luciferase reporter plasmidRORA 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for RORA
    Predesigned siRNA for gene silencing in human, mouse, rat RORA

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for RORA

    Clone
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    OriGene clones in human, mouse for RORA (see all 20)
    OriGene ORF clones in mouse, rat for RORA
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 4): RORA (NM_134261)
    Sino Biological Human cDNA Clone for RORA
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for RORA
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RORA

    Cell Line
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    Browse ESI BIO Cell Lines and PureStem Progenitors for RORA 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RORA


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    RORA_HUMAN, P35398: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol2
    extracellular1

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA18658046
    GO:0005654nucleoplasm TAS--

    RORA for ontologies           About GeneDecksing


    (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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    SuperPaths for RORA About   (see all 11)  
    See pathways by source

    SuperPathContained pathways About
    1Nuclear Receptor transcription pathway
    Nuclear Receptor transcription pathway0.67
    Nuclear Receptors0.67
    2Circadian rhythm
    Circadian rhythm0.31
    Circadian Clock in Mammals0.31
    3Fatty acid, triacylglycerol, and ketone body metabolism
    Fatty acid, triacylglycerol, and ketone body metabolism0.65
    PPARA Activates Gene Expression0.63
    Regulation of Lipid Metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha)0.65
    4Circadian Repression of Expression by REV-ERBA
    Circadian Repression of Expression by REV-ERBA0.88
    RORA Activates Circadian Expression0.88
    5Circadian Clock
    Circadian Clock0.66
    BMAL1-CLOCK/NPAS2 Activates Circadian Expression0.66

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    2 Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for RORA
        Melatonin Signaling
    Circadian Clock in Mammals

    3 BioSystems Pathways for RORA
        Adipogenesis
    Nuclear Receptors
    SIDS Susceptibility Pathways


    Selected Reactome Pathways for RORA (see all 6)
        Circadian Clock
    Nuclear Receptor transcription pathway
    PPARA activates gene expression
    REV-ERBA represses gene expression
    BMAL1:CLOCK,NPAS2 activates circadian gene expression


    2 Kegg Pathways  (Kegg details for RORA):
        Circadian rhythm
    Inflammatory bowel disease (IBD)


    RORA for pathways           About GeneDecksing

        Pathway & Disease-focused RT2 Profiler PCR Arrays including RORA: 
              Th17 Response in human mouse rat
              Circadian Rhythms in human mouse rat
              T Helper Cell Differentiation in human mouse rat
              Nuclear Receptors & Coregulators in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for RORA

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for RORA (P353981, 2, 3 ENSP000002615234) via UniProtKB, MINT, STRING, and/or I2D (see all 93)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    PSMC5P621952, 3, ENSP000003105724MINT-2862145 I2D: score=7 STRING: ENSP00000310572
    NR0B1P518431, 2, 3, ENSP000003682534EBI-748689,EBI-946109 MINT-2855726 MINT-2856905 I2D: score=3 STRING: ENSP00000368253
    NME2P223923, ENSP000003655724I2D: score=1 STRING: ENSP00000365572
    MYOD1P151723, ENSP000002500034I2D: score=2 STRING: ENSP00000250003
    NME1P155313, ENSP000000130344I2D: score=2 STRING: ENSP00000013034
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 33):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001525angiogenesis IMP18658046
    GO:0006351transcription, DNA-templated ----
    GO:0006355regulation of transcription, DNA-templated IDA9328355
    GO:0006367transcription initiation from RNA polymerase II promoter TAS--
    GO:0006805xenobiotic metabolic process ISS--

    RORA for ontologies           About GeneDecksing



    (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 RORA

    2 DrugBank Compounds for RORA    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    Cholesterol-- 57-88-5target--17139284 17016423 10592235
    Cholesterol-Sulfate-- --target--17139284 17016423 10592235

    3 IUPHAR Ligands for RORA (RAR-related orphan receptor-alpha)    About this table
    LigandTypeActionAffinityPubmed IDs
    7-hydroxycholesterol
    AgonistAgonist14622968
    cholesterol sulphate
    AgonistAgonist12467577 14622968
    cholesterol
    AgonistAgonist12467577 8858107

    Selected Novoseek inferred chemical compound relationships for RORA gene (see all 16)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    cholesterol-sulfate 73.7 7 14722075 (3), 18658046 (1), 19965867 (1)
    retinoic acid 68.7 48 12023888 (2), 20332535 (2), 19439415 (2), 15662020 (2) (see all 20)
    melatonin 64.8 39 11369450 (3), 11888668 (3), 18078443 (2), 16030176 (2) (see all 18)
    thiazolidinedione 55 4 17545671 (3), 15305379 (1)
    retinoid 46.6 3 7739535 (1), 16030176 (1), 11981035 (1)
    15-deoxy-delta-12,14-prostaglandin j2 43.1 2 15662020 (1), 16483373 (1)
    estrogen 24 3 18078443 (1), 19439415 (1), 10830318 (1)
    tyrosine 22.9 15 15654020 (2), 16211313 (1), 1334494 (1), 9684897 (1) (see all 9)
    vitamin d 16.4 1 10830318 (1)
    cholesterol 16.4 14 12467577 (3), 14722075 (2), 19786043 (1), 12467566 (1) (see all 5)



    RORA for compounds           About GeneDecksing



    (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,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for RORA gene (4 alternative transcripts): 
    NM_002943.3  NM_134260.2  NM_134261.2  NM_134262.2  

    Unigene Clusters for RORA:

    RAR-related orphan receptor A
    Hs.560343  [show with all ESTs], Hs.655155  [show with all ESTs]
    Unigene Representative Sequences: NM_134260, BC035094
    14 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000335670(uc002agt.4 uc021sni.1 uc002agv.3 uc002agw.3 uc002agx.3)
    ENST00000309157 ENST00000261523 ENST00000449337 ENST00000559587 ENST00000551975
    ENST00000560004 ENST00000559343 ENST00000558234 ENST00000557822 ENST00000559145
    ENST00000561093 ENST00000560300 ENST00000558904

    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate RORA (see all 342):
    hsa-miR-124* hsa-miR-579 hsa-miR-576-3p hsa-miR-193a-3p hsa-miR-520f hsa-miR-502-3p hsa-miR-3916 hsa-miR-3162-5p
    SwitchGear 3'UTR luciferase reporter plasmidRORA 3' UTR sequence
    Inhib. RNA
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    OriGene RNAi products in human, mouse, rat for RORA
    Predesigned siRNA for gene silencing in human, mouse, rat RORA
    Clone
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    OriGene ORF clones in mouse, rat for RORA
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 4): RORA (NM_134261)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for RORA
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RORA
    Primer
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    OriGene qPCR primer pairs and template standards for RORA
    OriGene qSTAR qPCR primer pairs in human, mouse for RORA
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat RORA
      QuantiTect SYBR Green Assays in human, mouse, rat RORA
      QuantiFast Probe-based Assays in human, mouse, rat RORA

    Additional mRNA sequence: BC035094.2 

    24 DOTS entries:

    DT.100035866  DT.91758986  DT.208314  DT.311229  DT.86843853  DT.100759045  DT.100759048  DT.75102163 
    DT.95253640  DT.75168406  DT.112241  DT.65285013  DT.95365737  DT.91758984  DT.95322819  DT.121075130 
    DT.75145191  DT.91679028  DT.92032848  DT.428809  DT.75118475  DT.75137376  DT.91751329  DT.91974073 

    Selected AceView cDNA sequences (see all 41):

    NM_134260 CR591459 CR611772 BX431840 U04898 BU619670 BG741583 U04899 
    AW243356 AL532047 BX453671 BM553788 NM_134262 NM_002943 BG705319 BI560917 
    AL700550 AL532048 BM903731 AW242739 BX281408 BF308198 AA777459 L14611 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for RORA (see all 6)    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17
    SP1:                                -     -     -                       -                                                   
    SP2:                                      -     -     -     -           -                                                   
    SP3:                    -     -     -     -     -     -     -           -                                                   
    SP4:                                                  -     -           -                                                   
    SP5:                                                                                                                        


    ECgene alternative splicing isoforms for RORA

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


    RORA expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 15) fully expand
     
     Brain (Nervous System)    fully expand to see all 6 entries
             Cerebral Cortex
     
     Eye (Sensory Organs)
             Cone Precursor Cells Outer Nuclear Layer
     
     Neurons
             Cone Precursor Cells Outer Nuclear Layer
     
     Thymus (Hematopoietic System)    fully expand to see all 2 entries
             T Helper Cells Thymus
             Thymus
     
     Ovary (Reproductive System)    fully expand to see all 2 entries
             Ovarian Mesenchymal Stroma Cells Ovary Interstitium
             Oviduct
    RORA Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    RORA Protein Expression

    SOURCE GeneReport for Unigene clusters: Hs.560343 Hs.655155

    UniProtKB/Swiss-Prot: RORA_HUMAN, P35398
    Tissue specificity: Widely expressed in a number of tissues

        Pathway & Disease-focused RT2 Profiler PCR Arrays including RORA: 
              Th17 Response in human mouse rat
              Circadian Rhythms in human mouse rat
              T Helper Cell Differentiation in human mouse rat
              Nuclear Receptors & Coregulators in human mouse rat

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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 animals.

    Orthologs for RORA gene from Selected species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Rora1 , 5 RAR-related orphan receptor alpha1, 5 90.88(n)1
    97.24(a)1
      9 (37.45 cM)5
    198831  NM_013646.11  NP_038674.11 
     686537865 
    chicken
    (Gallus gallus)
    Aves RORA1 RAR-related orphan receptor A 88.91(n)
    96.46(a)
      415377  XM_413763.4  XP_413763.3 
    lizard
    (Anolis carolinensis)
    Reptilia RORA6
    RAR-related orphan receptor A
    97(a)
    1 ↔ 1
    GL343428.1(561819-567562)
    zebrafish
    (Danio rerio)
    Actinopterygii zgc559542 similar to RAR-related orphan receptor A 73.79(n)   394042  BC051158.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Hr463 ligand-dependent nuclear receptor 37(a)     --
    worm
    (Caenorhabditis elegans)
    Secernentea nhr-233 nuclear hormone receptor 33(a)   I(7228074-7228944)   --


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for RORA gene
    VDR2  PPARD2  RARG2  NR1I22  PPARA2  THRB2  RARA2  NR1H42  
    NR1D22  RARB2  RORB2  RORC2  NR1D12  NR1I32  PPARG2  NR1H22  
    THRA2  NR1H32  
    Selected SIMAP similar genes for RORA using alignment to 3 protein entries:     RORA_HUMAN (see all proteins) (see all similar genes):
    NR1F1    NR1F2    RARA    NR2A3    HNF4G    VDR
    BCOR-RARA    HNF4alpha    NR3C2    NR6A1    NR1B2    NR2A1
    NR2C1    NR2C2    RARB    RORB    NR5A2    NR2B3

    RORA for paralogs           About GeneDecksing



    (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 RORA (see all 15919)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 15 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs114015811,2
    C--37608826(+) ACTTT-/AAAAAA 4 -- ut310--------
    rs725297381,2
    C--37608833(+) AAAAA-/A/CATCCG 8 -- ut310--------
    rs675928131,2
    C--37610503(+) TCATT-/A/AA  
            
    AAAAA
    8 -- ut310--------
    rs105484931,2
    C--37610513(+) AAAAA-/AA/AAA
            
    CCATG
    8 -- ut311NA 2
    rs106538331,2
    C--37634216(+) TTCAC-/CTTA  
            
    CTTAT
    4 -- int10--------
    rs678726721,2
    C--37634218(+) TCACC-/C/CTTA
            
    TTATT
    4 -- int10--------
    rs343115041,2
    C--37635661(+) TGTCATT/-TTTTT 4 -- int11Minor allele frequency- -:0.50CSA 2
    rs113471731,2
    C--37643780(+) CTTCT-/ATTTTT 4 -- int10--------
    rs58130311,2
    C--37652907(+) TATTA-/CCCATA 4 -- int10--------
    rs1467886761,2
    C--37653416(+) AAATG-/CACACA
    /CACACACA
    CACAC
    8 -- int1 cds10--------

    HapMap Linkage Disequilibrium report for RORA (60780483 - 61030483 bp, first 250kb of RORA)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for RORA (see all 36):    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv451e199CNV Deletion23128226
    dgv342e201CNV Deletion23290073
    esv2749760CNV Deletion23290073
    esv2749759CNV Deletion23290073
    esv2749761CNV Deletion23290073
    esv2676310CNV Deletion23128226
    esv2749757CNV Deletion23290073
    esv1376643CNV Deletion17803354
    esv2749755CNV Deletion23290073
    esv998706CNV Deletion20482838

    Human Gene Mutation Database (HGMD): RORA
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing RORA
    DNA2.0 Custom Variant and Variant Library Synthesis for RORA

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 600825    OMIM disorders: --

    Selected diseases for RORA (see all 38):    
    About MalaCards
    lown-ganong-levine syndrome    hypoalphalipoproteinemia    placental choriocarcinoma    pulmonary emphysema
    anxiety disorder    acne    thyroiditis    choriocarcinoma
    mood disorder    major depressive disorder    autism spectrum disorder    age related macular degeneration
    atherosclerosis    bipolar disorder    lymphoblastic leukemia    liver disease
    asthma    prostate cancer    breast and colorectal cancer    inflammatory bowel disease


    RORA for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:
    Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015

    9 Novoseek inferred disease relationships for RORA gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    atherosclerosis 25.2 10 9851961 (2), 15790933 (1), 15781255 (1), 15941850 (1) (see all 6)
    gastric cancer 19.3 1 16211313 (1)
    inflammation 4.62 4 19324970 (1), 20185965 (1), 15270719 (1), 15941850 (1)
    breast cancer 2.37 8 19439415 (3), 11369450 (2), 11888668 (1)
    cardiovascular diseases 0 4 16604183 (1), 18658046 (1)
    necrosis 0 5 15662020 (2), 18558998 (1)
    tumors 0 6 15662020 (2), 11241556 (1)
    prostate cancer 0 6 12168086 (2), 11241556 (2), 15305379 (2)
    cancer 0 2 20122401 (1), 16462772 (1)

    Genetic Association Database (GAD): RORA
    Human Genome Epidemiology (HuGE) Navigator: RORA (13 documents)

    Export disorders for RORA 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 RORA gene, integrated from 10 sources (see all 190):
    (articles sorted by number of sources associating them with RORA)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Isoform-specific amino-terminal domains dictate DNA-binding properties of ROR alpha, a novel family of orphan hormone nuclear receptors. (PubMed id 7926749)1, 2, 3 Giguere V.... Otulakowski G. (Genes Dev. 1994)
    2. Transcriptional activation of HIF-1 by RORalpha and its role in hypoxia signaling. (PubMed id 18658046)1, 2, 9 Kim E.J.... Lee M.O. (Arterioscler. Thromb. Vasc. Biol. 2008)
    3. Identification of the human ApoAV gene as a novel RORalpha target gene. (PubMed id 15781255)1, 2, 9 Lind U.... Kang D. (Biochem. Biophys. Res. Commun. 2005)
    4. Crystal structure of the human RORalpha Ligand binding domain in complex with cholesterol sulfate at 2.2 A. (PubMed id 14722075)1, 2, 9 Kallen J.... Fournier B. (J. Biol. Chem. 2004)
    5. Convergence of linkage, gene expression and association data demonstrates the influence of the RAR-related orphan receptor alpha (RORA) gene on neovascular AMD: a systems biology based approach. (PubMed id 19786043)1, 4, 9 Silveira A.C....DeAngelis M.M. (Vision Res. 2010)
    6. SUMOylation of RORalpha potentiates transcriptional activation function. (PubMed id 19041634)1, 2, 9 Hwang E.J.... Kim K.I. (Biochem. Biophys. Res. Commun. 2009)
    7. Transcriptional regulation of apolipoprotein A5 gene expression by the nuclear receptor RORalpha. (PubMed id 15790933)1, 2, 9 Genoux A....Fruchart J.C. (Arterioscler. Thromb. Vasc. Biol. 2005)
    8. Evidence for genetic association of RORB with bipolar disorder. (PubMed id 19909500)1, 4, 9 McGrath C.L....Tsuang M.T. (BMC Psychiatry 2009)
    9. Transcriptional regulation of apolipoprotein C-III gene expression by the orphan nuclear receptor RORalpha. (PubMed id 11053433)1, 2, 9 Raspe E.... Staels B. (J. Biol. Chem. 2001)
    10. Exogenous expression of a dominant negative RORalpha1 vector in muscle cells impairs differentiation: RORalpha1 directly interacts with p300 and myoD. (PubMed id 9862959)1, 2, 9 Lau P.... Muscat G.E. (Nucleic Acids Res. 1999)

    (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: 6095 HGNC: 10258 AceView: RORA Ensembl:ENSG00000069667 euGenes: HUgn6095
    ECgene: RORA Kegg: 6095 H-InvDB: RORA

    (According to HUGE)
    About This Section

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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)
    About This Section

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    NameDescription
    PharmGKB entry for RORA Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for RORA Genetics and Cytogenetics in Oncology and Haematology

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

    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, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, 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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