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FCRL6 Gene

protein-coding   GIFtS: 50
GCID: GC01P159771

Fc Receptor-Like 6

  See FCRL6-related disease
at  

(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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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Fc Receptor-Like 61 2     Fc Receptor-Like Protein 72
Fc Receptor Homolog 62 3     IgSF Type I Transmembrane Receptor2
FcR-Like Protein 62 3     Leukocyte Receptor2
FcRH62 3     FCRH63
IFGP62 3     FcRL63
Fc Receptor-Like Protein 62     

External Ids:    HGNC: 319101   Entrez Gene: 3434132   Ensembl: ENSG000001810367   OMIM: 6135625   UniProtKB: Q6DN723   
ORGUL members:         

Export aliases for FCRL6 gene to outside databases

Previous GC identifers: GC01P156584 GC01P158036 GC01P131128


(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 FCRL6 Gene:
FCRL6 (Fc receptor-like 6) is a protein-coding gene. Diseases associated with FCRL6 include viral pneumonia. GO annotations related to this gene include protein phosphatase binding. An important paralog of this gene is FCGR1B.


(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_000001.10  NT_004487.20  NC_018912.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the FCRL6 gene promoter:
         LHX3b/Lhx3b   Pbx1a   FOXF2   GATA-3   POU3F2   GATA-1   GATA-2   LHX3a/Lhx3a   Cart-1   LyF-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidFCRL6 promoter sequence
   Search Chromatin IP Primers for FCRL6

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat FCRL6


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

Entrez Gene cytogenetic band: 1q23.2   Ensembl cytogenetic band:  1q23.2   HGNC cytogenetic band: 1q23.2

FCRL6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FCRL6 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P159771:  view genomic region     (about GC identifiers)

Start:
159,770,301 bp from pter      End:
159,786,047 bp from pter
Size:
15,747 bases      Orientation:
plus 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: FCRL6_HUMAN, Q6DN72 (See protein sequence)
Recommended Name: Fc receptor-like protein 6 precursor  
Size: 434 amino acids; 47748 Da
Subunit: Interacts with PTPN11
Secondary accessions: A1KXW6 A2A4D6 Q6DN73 Q6XRC3 Q6ZNI1
Alternative splicing: 4 isoforms:  Q6DN72-1   Q6DN72-2   Q6DN72-3   Q6DN72-4   

Explore the universe of human proteins at neXtProt for FCRL6: NX_Q6DN72

Explore proteomics data for FCRL6 at MOPED

Post-translational modifications: 

  • Phosphorylated on Tyr residue, inducing association with PTPN111
  • Glycosylation2 at Asn65, Asn273
  • Modification sites at PhosphoSitePlus

  • See FCRL6 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001004310.2  NP_001271146.1  

    ENSEMBL proteins: 
     ENSP00000440712   ENSP00000320625   ENSP00000340949   ENSP00000376068   ENSP00000357086  

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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:
    IGD: Immunoglobulin superfamily / Immunoglobulin-like domain containing

    4 InterPro protein domains:
     IPR003598 Ig_sub2
     IPR013783 Ig-like_fold
     IPR007110 Ig-like_dom
     IPR003599 Ig_sub

    Graphical View of Domain Structure for InterPro Entry Q6DN72

    ProtoNet protein and cluster: Q6DN72

    1 Blocks protein domain: IPB003598 Immunoglobulin C-2 type

    UniProtKB/Swiss-Prot: FCRL6_HUMAN, Q6DN72
    Domain: Contains 1 copy of a cytoplasmic motif that is referred to as the immunoreceptor tyrosine-based inhibitor
    motif (ITIM). The phosphorylated ITIM motif is involved in PTPN11 binding
    Similarity: Contains 3 Ig-like C2-type (immunoglobulin-like) domains


    Find genes that share domains with FCRL6           About GenesLikeMe


    (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, 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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         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
    GO:0019903protein phosphatase binding IEA--
         
    Find genes that share ontologies with FCRL6           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for FCRL6:
     Decreased viability of wild-ty 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for FCRL6
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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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    Subcellular locations from UniProtKB/Swiss-Prot
    FCRL6_HUMAN, Q6DN72: Membrane; Single-pass type I membrane protein (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane5
    extracellular1
    lysosome1
    peroxisome1

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0009897external side of plasma membrane IDA17213291
    GO:0016021integral component of membrane IEA--

    Find genes that share ontologies with FCRL6           About GenesLikeMe


    (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 FCRL6
    Interactions:

        Search GeneGlobe Interaction Network for FCRL6

    STRING Interaction Network Preview (showing 5 interactants - click image to see 15)

    Selected Interacting proteins for FCRL6 (ENSP000003570864) via UniProtKB, MINT, STRING, and/or I2D (see all 15)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CHRM3ENSP000002553804STRING: ENSP00000255380
    ENSG00000225553ENSP000003919014STRING: ENSP00000391901
    HDAC1ENSP000003626494STRING: ENSP00000362649
    HDAC4ENSP000002646064STRING: ENSP00000264606
    MDM2ENSP000004172814STRING: ENSP00000417281
    About this table

    (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 FCRL6



    (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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    REFSEQ mRNAs for FCRL6 gene (2 alternative transcripts): 
    NM_001004310.2  NM_001284217.1  

    Unigene Cluster for FCRL6:

    Fc receptor-like 6
    Hs.196955  [show with all ESTs]
    Unigene Representative Sequence: AK131201
    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000540741(uc010pix.1) ENST00000536257 ENST00000321935(uc001fuc.2 uc009wsz.1 uc001fud.4 uc009wta.3)
    ENST00000541729 ENST00000339348 ENST00000392235 ENST00000368106
    miRNA
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    Additional mRNA sequence: 

    AK131201.1 AK301270.1 AY212514.1 AY513661.1 AY654627.1 AY654628.1 

    3 DOTS entries:

    DT.65287761  DT.121432953  DT.75160742 

    4 AceView cDNA sequences:

    AK131201 AI631310 AY212514 AI677739 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for FCRL6    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11
    SP1:                                                                  
    SP2:                                                        -         
    SP3:                    -     -                                       
    SP4:                                                                  
    SP5:                                                                  


    ECgene alternative splicing isoforms for FCRL6

    (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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    FCRL6 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGCCGCATAA
    FCRL6 Expression
    About this image

    FCRL6 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    FCRL6 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.196955

    UniProtKB/Swiss-Prot: FCRL6_HUMAN, Q6DN72
    Tissue specificity: Expressed by cytolytic cells including NK cells, effector and effector-memory CD8+ T-cells.
    Expression among T-cells is greatly expanded in HIV-1 infected individuals, and includes not only effector and
    effector-memory CD8+ T-cells but also populations of CD4+ T-cells

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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 FCRL6 gene from Selected species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Fcrl61 , 5 Fc receptor-like 61, 5 63.53(n)1
    46.27(a)1
      1 (80.00 cM)5
    6772961  NM_001164725.11  NP_001158197.11 
     1725966405 
    chicken
    (Gallus gallus)
    Aves FCRL26
    Gallus gallus Fc receptor-like 2 (FCRL2), mRNA.
    18(a)
    1 → many
    25(1587904-1591630)


    ENSEMBL Gene Tree for FCRL6 (if available)
    TreeFam Gene Tree for FCRL6 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for FCRL6 gene
    FCGR1B2  FCGR2B2  FCRLB2  FCGR3B2  FCRL22  FCRL12  FCRLA2  FCRL52  
    FCRL42  FCGR2A2  FCGR1A2  FCGR3A2  FCRL32  FCER1A2  
    4 SIMAP similar genes for FCRL6 using alignment to 2 protein entries:     FCRL6_HUMAN (see all proteins):
    FCRLA    DKFZp686L20250    FCGR1A    FCRL3

    Find genes that share paralogs with FCRL6           About GenesLikeMe


    1 Pseudogenes.org Pseudogene for FCRL6
    PGOHUM00000244306


    (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 FCRL6 (see all 493)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1467790811,2
    C,Funtested1159785428(+) TTAGCG/AACTGT 2 /N /D mis11Minor allele frequency- A:0.00NA 4548
    rs115867881,2
    C,F,H--159770178(+) GAACCC/TGGTAG 1 -- us2k16Minor allele frequency- T:0.02NS EA NA 636
    rs575469391,2
    F--159770323(+) TGCAGC/TTGAAC 1 -- us2k11Minor allele frequency- T:0.03WA 118
    rs1386555071,2
    --159770608(+) CATCAC/GACTAT 1 -- us2k10--------
    rs568505131,2
    C,F--159770642(+) TCCAGG/AAAGAA 1 -- us2k11Minor allele frequency- A:0.09WA 118
    rs39357821,2
    C,F,A--159770684(+) GGTGGT/CGCATG 1 -- us2k15Minor allele frequency- C:0.04NA WA 128
    rs1830168021,2
    --159770830(+) AGAAAG/TAAAAG 1 -- us2k10--------
    rs1875883061,2
    --159771012(+) CTTGTA/GTATGT 1 -- us2k10--------
    rs1493335781,2
    --159771042(+) TACATC/TTCTGT 1 -- us2k10--------
    rs120759401,2
    C,F,H--159771067(+) ggagtG/Aaaaat 1 -- us2k19Minor allele frequency- A:0.04NS EA NA WA 1290

    HapMap Linkage Disequilibrium report for FCRL6 (159770301 - 159786047 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for FCRL6:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv991387CNV Insertion20482838
    nsv521503CNV Loss19592680

    Human Gene Mutation Database (HGMD): FCRL6
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing FCRL6
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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.)
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    OMIM gene information: 613562    OMIM disorders: --

    1 disease for FCRL6:    
    About MalaCards
    viral pneumonia


    Find genes that share disorders with FCRL6           About GenesLikeMe

    3 Novoseek inferred disease relationships for FCRL6 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    inflammation 11.3 7 12172542 (1), 8558067 (1), 12945872 (1), 12861350 (1) (see all 5)
    asthma 0 2 12172542 (1), 12861350 (1)
    pneumonia 0 1 12172542 (1)


    Export disorders for FCRL6 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 FCRL6 gene, integrated from 10 sources (see all 80):
    (articles sorted by number of sources associating them with FCRL6)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. FcRL6, a new ITIM-bearing receptor on cytolytic cells, is broadly expressed by lymphocytes following HIV-1 infection. (PubMed id 17213291)1, 2 Wilson T.J....Colonna M. (Blood 2007)
    2. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (Nature 2006)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    4. Genome-wide association and population genetic analysis of C-reactive protein in African American and Hispanic American women. (PubMed id 22939635)1 Reiner A.P....Tang H. (Am. J. Hum. Genet. 2012)
    5. Cutting edge: FcR-like 6 is an MHC class II receptor. (PubMed id 20519654)1 Schreeder D.M....Davis R.S. (J. Immunol. 2010)
    6. FCRL6 distinguishes mature cytotoxic lymphocytes and is upregulated in patients with B-cell chronic lymphocytic leukemia. (PubMed id 18991291)1 Schreeder D.M....Davis R.S. (Eur. J. Immunol. 2008)
    7. The first avian Ig-like Fc receptor family member combines features of mammalian FcR and FCRL. (PubMed id 17273841)1 Taylor A.I....Calvert R.A. (Immunogenetics 2007)
    8. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
    9. Recognition of classical and heavy chain forms of HLA-B27 by leukocyte receptors. (PubMed id 15011960)9 Allen R.L. and Trowsdale J. (Curr. Mol. Med. 2004)
    10. The interaction of Fc alpha RI with IgA and its implications for ligand binding by immunoreceptors of the leukocyte receptor cluster. (PubMed id 11160224)9 Wines B.D....Hogarth P.M. (J. Immunol. 2001)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
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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: 343413 HGNC: 31910 AceView: LOC343413 Ensembl:ENSG00000181036 euGenes: HUgn343413
    ECgene: FCRL6 H-InvDB: FCRL6

    (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 FCRL6 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 FCRL6 gene:
    Search GeneIP for patents involving FCRL6

    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, eBioscience, 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 inGenious Targeting Laboratory, genOway)
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