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

RCN1 Gene

protein-coding   GIFtS: 53
GCID: GC11P031815

reticulocalbin 1, EF-hand calcium binding domain


(Previous symbol: RCN)
 Explore 14 diseases affiliated with
RCN1 via our new
 Human Malady Compendium 
Biological research products
for RCN1
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Reticulocalbin 1, EF-Hand Calcium Binding Domain1 2     Rcal1
RCN1 2 3     RCAL2
PIG201 2     Proliferation-Inducing Gene 202
FLJ370411     Reticulocalbin-11

External Ids:    HGNC: 99341   Entrez Gene: 59542   Ensembl: ENSG000000494497   OMIM: 6027355   UniProtKB: Q152933   

Export aliases for RCN1 gene to outside databases

Previous GC identifers: GC13M043963 GC11P032887 GC11P032151 GC11P032077 GC11P032076 GC11P032069 GC11P032112


(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 RCN1:
Reticulocalbin 1 is a calcium-binding protein located in the lumen of the ER. The protein contains six conserved
regions with similarity to a high affinity Ca(+2)-binding motif, the EF-hand. High conservation of amino acid residues
outside of these motifs, in comparison to mouse reticulocalbin, is consistent with a possible biochemical function
besides that of calcium binding. In human endothelial and prostate cancer cell lines this protein localizes to the
plasma membrane.(provided by RefSeq, Jan 2009)

UniProtKB/Swiss-Prot: RCN1_HUMAN, Q15293
Function: May regulate calcium-dependent activities in the endoplasmic reticulum lumen or post-ER compartment

Gene Wiki entry for RCN1


(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000011.9  NC_018922.1  NT_009237.18  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the RCN1 gene promoter:
         STAT5B   IRF-2   PPAR-gamma1   HOXA3   STAT5A   CUTL1   PPAR-gamma2   Hlf   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidRCN1 promoter sequence
   Search SABiosciences Chromatin IP Primers for RCN1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RCN1


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

Entrez Gene cytogenetic band: 11p13   Ensembl cytogenetic band:  11p13   HGNC cytogenetic band: 11p13

RCN1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RCN1 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P031815:  view genomic region     (about GC identifiers)

Start:
31,833,939 bp from pter      End:
32,127,301 bp from pter
Size:
293,363 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: RCN1_HUMAN, Q15293 (See protein sequence)
Recommended Name: Reticulocalbin-1 precursor  
Size: 331 amino acids; 38890 Da
Subcellular location: Endoplasmic reticulum lumen
Miscellaneous: This protein has four functional calcium-binding sites; potential sites II and VI have lost affinity for
calcium (By similarity)
Secondary accessions: D3DR00

Explore the universe of human proteins at neXtProt for RCN1: NX_Q15293

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q15293

  • RCN1 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_002892.1  
    ENSEMBL proteins: 
     ENSP00000436482   ENSP00000436422   ENSP00000054950   ENSP00000432758   ENSP00000433776  
     ENSP00000433249   ENSP00000436427   ENSP00000433237  

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    Uscn Proteins for RCN1

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005783endoplasmic reticulum IDA--
    GO:0005788endoplasmic reticulum lumen IEA--


    RCN1 for ontologies           About GeneDecksing



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    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    RCN1 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR011992 EF-hand-like_dom
     IPR002048 EF_hand_Ca-bd
     IPR018247 EF_Hand_1_Ca_BS

    Graphical View of Domain Structure for InterPro Entry Q15293

    ProtoNet protein and cluster: Q15293

    UniProtKB/Swiss-Prot: RCN1_HUMAN, Q15293
    Similarity: Belongs to the CREC family
    Similarity: Contains 6 EF-hand domains


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: RCN1_HUMAN, Q15293
    Function: May regulate calcium-dependent activities in the endoplasmic reticulum lumen or post-ER compartment

         Genatlas biochemistry entry for RCN1:
    reticulocalbin,Ca++ binding protein of the endoplasmic reticulum,involved in protein processing,deleted in WAGR
    syndrome

    miRNA
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    Inhib. RNA
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    Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005509calcium ion binding IEA--
    GO:0005515protein binding IPI16713569


    RCN1 for ontologies           About GeneDecksing



    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for RCN1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 6)

    5/13 Interacting proteins for RCN1 (Q152931, 2, 3 ENSP000000549504) via UniProtKB, MINT, STRING, and/or I2D (see all 13)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ATXN1P542531, 2, 3, ENSP000002447694EBI-948278,EBI-930964 MINT-2862577 MINT-2862596 MINT-2862615 I2D: score=3 STRING: ENSP00000244769
    ZWINTO952293, ENSP000003630554I2D: score=2 STRING: ENSP00000363055
    MYCP011063, ENSP000003672074I2D: score=1 STRING: ENSP00000367207
    ATG2AQ2TAZ03I2D: score=1 
    BCAR3O758153I2D: score=1 
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001701in utero embryonic development IEA--
    GO:0043010camera-type eye development IEA--


    RCN1 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, 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
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for RCN1

    1 HMDB Compound for RCN1    About this table
    CompoundSynonyms CAS #PubMed Ids
    CalciumCa (see all 2)7440-70-2--
    Search CenterWatch for drugs/clinical trials and news about RCN1 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for RCN1 gene: 
    NM_002901.2  

    Unigene Cluster for RCN1:

    Reticulocalbin 1, EF-hand calcium binding domain
    Hs.97887  [show with all ESTs]
    Unigene Representative Sequence: AK126419
    13 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000530348 ENST00000532942 ENST00000506388(uc021qfo.1) ENST00000530146
    ENST00000054950(uc021qfp.1 uc010reb.2) ENST00000400416 ENST00000527835
    ENST00000532721 ENST00000533898(uc001mtk.3) ENST00000532474 ENST00000527337
    ENST00000531345 ENST00000528630

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    hsa-let-7d hsa-miR-513c hsa-let-7c hsa-miR-1297 hsa-let-7g hsa-let-7a hsa-miR-23a hsa-miR-26b
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    Additional cDNA sequence: 

    AK094360.1 AK126419.1 AK129791.1 AY423728.1 BC010120.2 D42073.1 

    24/31 DOTS entries (see all 31):

    DT.92348144  DT.92456861  DT.91944813  DT.319719  DT.100653579  DT.120768325  DT.95169706  DT.120768167 
    DT.100653574  DT.100733424  DT.92456863  DT.120745337  DT.92456865  DT.100030537  DT.100653580  DT.120745318 
    DT.120745380  DT.120745406  DT.121627538  DT.92456856  DT.95169687  DT.95169702  DT.99948411  DT.100030540 

    24/333 AceView cDNA sequences (see all 333):

    AU136469 CA449220 AK126419 AA514824 BI966161 CA432092 BM827397 AW023475 
    BM762577 AA039292 BC010120 AA903108 AI809263 AA453290 AA039334 CD679296 
    BM450595 BX487294 BU627347 AU280825 BF056523 CN485243 CA440710 AA370708 

    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™, 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

    RCN1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GAATGAGGAC

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image

    RCN1 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    6 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    BrainMedulla OblongataBrain
    Neural TubeDiencephalic Ventricular ZoneNeural Tube
    Neural TubeMesencephalic Ventricular ZoneNeural Tube
    Neural TubeMetencephalonNeural Tube
    Neural TubeTelencephalonNeural Tube
    Spinal CordPresumptive Spinal CordSpinal Cord
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See RCN1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for RCN1

    SOURCE GeneReport for Unigene cluster: Hs.97887
        SABiosciences Custom PCR Arrays for RCN1
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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)
    About This Section

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for RCN1 gene from 8/24 species (see all 24)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves RCN11 reticulocalbin 1, EF-hand calcium binding domain 75.64(n)
    76.16(a)
      428602  XM_426159.3  XP_426159.3 
    lizard
    (Anolis carolinensis)
    Reptilia RCN16
    --
    84(a)
    1 ↔ 1
    1(60981750-60989662)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia MGC762762 hypothetical protein MGC76276 76.69(n)    BC064883.1 
    zebrafish
    (Danio rerio)
    Actinopterygii rcn11 reticulocalbin 1, EF-hand calcium binding domain 72.93(n)
    75.8(a)
      562671  XM_686046.5  XP_691138.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta scf3 DNA supercoiling 46(a)
    (best of 2)
      61F5   --
    worm
    (Caenorhabditis elegans)
    Secernentea M03F4.73 calcium binding protein 47(a)   X(5005073-5006175)   --
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT4G277906
    AT5G085806
    EF-hand, calcium binding motif-containing protein
    20(a)
    17(a)
    many ↔ many
    many ↔ many
    4(13850046-13851533)
    5(2780512-2783066)
    rice
    (Oryza sativa)
    Liliopsida --
    --
    (see all 3)
    EF hand family protein, putative, expressed
    calcium-binding EF hand family protein, putative, ...
    (see all 3)
    20(a)
    17(a)
    (see all 3)
    many ↔ many
    many ↔ many
    (see all 3)
    4(34602257-34605106)
    2(6798696-6802474)


    ENSEMBL Gene Tree for RCN1 (if available)
    TreeFam Gene Tree for RCN1 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for RCN1 gene
    RCN32  CALU2  RCN22  SDF42  
    3 SIMAP similar genes for RCN1 using alignment to 8 protein entries:     RCN1_HUMAN (see all proteins):
    CALU    RCN3    RCN2

    RCN1 for paralogs           About GeneDecksing


    2 Pseudogenes.org Pseudogenes for RCN1
    PGOHUM00000256721 PGOHUM00000243283


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/308 NCBI SNPs in RCN1 are shown (see all 308    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1892871251,2
    --32110522(+) AGAAGC/TGGGGA 1 -- us2k10--------
    rs1508625011,2
    --32110654(+) TCCTTC/TCATCT 1 -- us2k10--------
    rs1393060141,2
    --32110811(+) TCCATA/GGATCT 1 -- us2k10--------
    rs1810155681,2
    --32110858(+) AGGTGC/TTCAGT 1 -- us2k10--------
    rs1835478461,2
    --32110877(+) CGAACA/GAACGA 1 -- us2k10--------
    rs1495770441,2
    --32110897(+) TGTTCA/GTATAC 1 -- us2k10--------
    rs1460639161,2
    --32111197(+) AACTAC/TCGTTT 1 -- us2k10--------
    rs1429941151,2
    --32111210(+) GTTTT-/CTAGGG 1 -- us2k10--------
    rs719635901,2
    C--32111216(+) TAGGG-/TTTTTT 1 -- us2k10--------
    rs2230481,2
    H--32111222(-) aaaaaA/Taaaaa 1 -- us2k1 trp34Minor allele frequency- T:0.00NS EA 420

    HapMap Linkage Disequilibrium report for RCN1 (31833939 - 32083939 bp, first 250kb of RCN1)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 2 variations for RCN1
         2 CNVs: 5623 4734

    SABiosciences Cancer Mutation PCR Assays
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    (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.)
    About This Section

    RCN1 for disorders           About GeneDecksing

    OMIM gene information: 602735    OMIM disorders: --

    14 diseases for RCN1:    About MalaCards
    prostate cancer    prostatitis    nephrogenic systemic fibrosis    metastasis efficiency
    wagr syndrome    tuberous sclerosis    thrombosis    liver cancer
    fibrosis    nasopharyngitis    lung cancer    ataxia
    malaria    carcinoma

    1 Novoseek disease relationship for RCN1 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tumors 0 2 17189526 (1), 18561328 (1)


    Export disorders for RCN1 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)
    About This Section

    PubMed articles for RCN1 gene, integrated from 9 sources (see all 40):
    (articles sorted by number of sources associating them with RCN1)
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    1. Cloning of a human homologue of mouse reticulocalbin reveals conservation of structural domains in the novel endoplasmic reticulum resident Ca(2+)-binding protein with multiple EF-hand motifs. (PubMed id 8586628)1, 2, 3 Ozawa M. (1995)
    2. Human chromosome 11 DNA sequence and analysis including novel gene identification. (PubMed id 16554811)1, 2 Taylor T.D....Sakaki Y. (2006)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    4. The reticulocalbin gene maps to the WAGR region in human and to the Small eye Harwell deletion in mouse. (PubMed id 9192846)1, 3 Kent J....Bickmore W.A. (1997)
    5. Novel surface expression of reticulocalbin 1 on bone endothelial cells and human prostate cancer cells is regulated by TNF-alpha. (PubMed id 18561328)1, 9 Cooper C.R....Pienta K.J. (2008)
    6. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    7. A high-throughput approach for measuring temporal chan ges in the interactome. (PubMed id 22863883)1 Kristensen A.R....Foster L.J. (2012)
    8. Global landscape of HIV-human protein complexes. (PubMed id 22190034)1 Jager S....Krogan N.J. (2012)
    9. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    10. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 5954 HGNC: 9934 AceView: RCN1 Ensembl:ENSG00000049449 euGenes: HUgn5954
    ECgene: RCN1 H-InvDB: RCN1

    (According to HUGE)
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    (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 RCN1 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 RCN1 gene:
    Search GeneIP for patents involving RCN1

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