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CD300LD Gene

protein-coding   GIFtS: 36
GCID: GC17M072576

CD300 Molecule-Like Family Member D

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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
CD300 Molecule-Like Family Member D1 2     CD300 Antigen-Like Family Member D2 3
CD300D2 3     CMRF35-Like Molecule 42
CLM-42 3     Immune Receptor CD300d2
CMRF35-A42 3     CD300d Antigen3
CMRF35A42 3     

External Ids:    HGNC: 168481   Entrez Gene: 1001314392   Ensembl: ENSG000002043457   UniProtKB: Q6UXZ33   

Export aliases for CD300LD gene to outside databases

Previous GC identifers: GC17M070088 GC17M067985


(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 CD300LD Gene:
CD300LD (CD300 molecule-like family member d) is a protein-coding gene. An important paralog of this gene is CD300LG.


(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_000017.10  NC_018928.2  NT_010783.16  
Regulatory elements:
   Regulatory transcription factor binding sites in the CD300LD gene promoter:
         Bach1   GR   Tal-1   GR-beta   HNF-4alpha2   HNF-4alpha1   E47   AREB6   RORalpha1   GR-alpha   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for CD300LD

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CD300LD


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

Entrez Gene cytogenetic band: 17q25.1   Ensembl cytogenetic band:  17q25.1   HGNC cytogenetic band: 17q25.1

CD300LD Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CD300LD gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M072576:  view genomic region     (about GC identifiers)

Start:
72,575,504 bp from pter      End:
72,588,422 bp from pter
Size:
12,919 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, 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: CLM4_HUMAN, Q6UXZ3 (See protein sequence)
Recommended Name: CMRF35-like molecule 4 precursor  
Size: 194 amino acids; 21558 Da
Subunit: Forms complexes with the CD300 family members with exception of CD300c

Explore the universe of human proteins at neXtProt for CD300LD: NX_Q6UXZ3

Explore proteomics data for CD300LD at MOPED

Post-translational modifications: 

  • N-glycosylated1
  • Glycosylation2 at Asn28
  • Modification sites at PhosphoSitePlus

  • See CD300LD Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001108624.1  
    ENSEMBL proteins: 
     ENSP00000364501  

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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:
    VSET: Immunoglobulin superfamily / V-set domain containing

    4 InterPro protein domains:
     IPR013783 Ig-like_fold
     IPR013106 Ig_V-set
     IPR007110 Ig-like_dom
     IPR003599 Ig_sub

    Graphical View of Domain Structure for InterPro Entry Q6UXZ3

    ProtoNet protein and cluster: Q6UXZ3

    UniProtKB/Swiss-Prot: CLM4_HUMAN, Q6UXZ3
    Similarity: Belongs to the CD300 family
    Similarity: Contains 1 Ig-like V-type (immunoglobulin-like) domain


    Find genes that share domains with CD300LD           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): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI--
         
    Find genes that share ontologies with CD300LD           About GenesLikeMe


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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
    CLM4_HUMAN, Q6UXZ3: Cell membrane; Single-pass type I membrane protein. Note=Cell surface localization requires
    the ITAM-bearing Fc receptor FCER1G to overcome ER retention
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane5
    extracellular3
    cytoskeleton1
    cytosol1
    endoplasmic reticulum1
    lysosome1
    peroxisome1

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005886plasma membrane IEA--
    GO:0016021integral component of membrane IEA--

    Find genes that share ontologies with CD300LD           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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        Pathway & Disease-focused RT2 Profiler PCR Array including CD300LD: 
              Molecular Toxicology PathwayFinder 384HT in human mouse rat

    Interactions:

        Search GeneGlobe Interaction Network for CD300LD

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for CD300LD (Q6UXZ31 ENSP000003645014) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    TFF1P041551, ENSP000002915274EBI-4314468,EBI-743871 STRING: ENSP00000291527
    About this table

    Gene Ontology (GO): 1 biological process term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0002376immune system process IEA--

    Find genes that share ontologies with CD300LD           About GenesLikeMe



    (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 CD300LD (CLM4)



    (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 CD300LD gene: 
    NM_001115152.1  

    Unigene Cluster for CD300LD:

    CD300 molecule-like family member d
    Hs.531099
    Unigene Representative Sequence: AY358148
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000375352(uc002jkz.2)
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    Additional mRNA sequence: 

    AY358148.1 EF137868.1 

    1 DOTS entry:

    DT.101965055 

    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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    CD300LD expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    CD300LD Expression
    About this image

    CD300LD Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CD300LD Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.531099

    UniProtKB/Swiss-Prot: CLM4_HUMAN, Q6UXZ3
    Tissue specificity: Expression seems restricted to cells of myeloid lineage

        Pathway & Disease-focused RT2 Profiler PCR Array including CD300LD: 
              Molecular Toxicology PathwayFinder 384HT in human mouse rat

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    In Situ
    Assay Products:
     

     
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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 CD300LD gene from Selected species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cd300ld1 , 5 CD300 molecule-like family member d1, 5 67.65(n)1
    56.8(a)1
      11 (80.56 cM)5
    2173051  NM_145437.21  NP_663412.11 
     1149822745 
    chicken
    (Gallus gallus)
    Aves --
    Uncharacterized protein
    24(a)
    1 → many
    18(10693051-10694640)
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    Uncharacterized protein
    34(a)
    23(a)
    many ↔ many
    many ↔ many
    2(116020650-116030691)
    2(115986797-115996463)


    ENSEMBL Gene Tree for CD300LD (if available)
    TreeFam Gene Tree for CD300LD (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CD300LD gene
    CD300LG2  CD300A2  CD300LB2  CD300C2  CD300LF2  CD300E2  
    4 SIMAP similar genes for CD300LD using alignment to 1 protein entry:     CLM4_HUMAN:
    CD300LF    CD300LB    CD300E    CD300C

    Find genes that share paralogs with CD300LD           About GenesLikeMe



    (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 CD300LD (see all 94)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1813678721,2
    --72575739(+) TGTTTA/TTCTGC 1 -- ds50010--------
    rs1414180911,2
    --72575751(+) AGGTGC/TGGTGG 1 -- ds50010--------
    rs726313661,2
    C,F--72575789(+) GAGGCG/AAAGCG 1 -- ds50012Minor allele frequency- A:0.07WA EA 238
    rs16995881,2
    --72575838(-) accacA/Gttgcc 1 -- ds5001 ese30--------
    rs17194671,2
    --72575850(-) agatgA/Ggcttc 1 -- ds5001 ese30--------
    rs1868974861,2
    --72575878(+) AATTAG/TCTGGG 1 -- ds50010--------
    rs1493426321,2
    C--72575941(+) ATCGCC/TTGAGC 1 -- ds50010--------
    rs1173836371,2
    F--72575950(+) GCCTGG/AGAGGG 1 -- ds50011Minor allele frequency- A:0.01EA 120
    rs72192891,2
    C,F--72575977(+) AGAGAT/CTACAC 1 -- ds5001 ese36Minor allele frequency- C:0.32WA NA CSA 245
    rs1999226831,2
    C--72576095(+) AGGACA/GTCAAT 1 -- ds50010--------

    HapMap Linkage Disequilibrium report for CD300LD (72575504 - 72588422 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for CD300LD:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv33995CNV Loss17666407
    esv2751770CNV Gain17911159
    dgv372n27CNV Gain19166990
    nsv517569CNV Gain+Loss19592680

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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      --

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for CD300LD gene integrated from 10 sources:
    (articles sorted by number of sources associating them with CD300LD)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Cloning and characterization of CD300d, a novel member of the human CD300 family of immune receptors. (PubMed id 22291008)1, 2, 3 Comas-Casellas E.... Sayos J. (J. Biol. Chem. 2012)
    2. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2 Clark H.F.... Gray A.M. (Genome Res. 2003)
    3. CD300 molecule regulation of human dendritic cell functions. (PubMed id 23072861)1 Gasiorowski R.E....Clark G.J. (Immunol. Lett. 2013)
    4. A secreted protein microarray platform for extracellular protein interaction discovery. (PubMed id 21982860)1 Ramani S.R....Gonzalez L.C. (Anal. Biochem. 2012)
    5. The CD300 molecules regulate monocyte and dendritic cell functions. (PubMed id 19592130)1 Clark G.J....Hart D.N. (Immunobiology 2009)
    6. The CD300 family of molecules are evolutionarily significant regulators of leukocyte functions. (PubMed id 19359216)1 Clark G.J....Hart D.N. (Trends Immunol. 2009)
    7. Novel immunoglobulin superfamily gene cluster, mapping to a region of human chromosome 17q25, linked to psoriasis susceptibility. (PubMed id 12483297)2 Speckman R.A.... Bowcock A.M. (Hum. Genet. 2003)
    8. (PubMed id )2 

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

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 100131439 HGNC: 16848 Ensembl:ENSG00000204345 euGenes: HUgn100131439 ECgene: CD300LD
    H-InvDB: CD300LD

    (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 CD300LD 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 CD300LD gene:
    Search GeneIP for patents involving CD300LD

    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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     PCR Arrays including human, mouse, rat CD300LD Search Chromatin IP Primers for CD300LD
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014

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