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

CCL3L3 Gene

protein-coding   GIFtS: 44
GCID: GC17M034523

chemokine (C-C motif) ligand 3-like 3

 Explore 5 diseases affiliated with
CCL3L3 via our new
 Human Malady Compendium 
Biological research products
for CCL3L3
    

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

Aliases
Chemokine (C-C Motif) Ligand 3-Like 31 2     464.22
Tonsillar Lymphocyte LD78 Beta Protein2 3     LD782
D17S17182 3     LD78BETA2
G0S19-22 3     SCYA3L2
LD78-Beta(1-70)1     C-C Motif Chemokine 3-Like 12
SCYA3L12 3     Chemokine (C-C Motif) Ligand 3-Like, Centromeric2
G0/G1 Switch Regulatory Protein 19-22 3     Small Inducible Cytokine A3-Like 12
PAT 464.22 3     Small-Inducible Cytokine A3-Like 13
MGC128151     

External Ids:    HGNC: 305541   Entrez Gene: 4140622   Ensembl: ENSG000002565157   OMIM: 6094685   UniProtKB: P166193   

Export aliases for CCL3L3 gene to outside databases

Previous GC identifer: GC17M031547


(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 CCL3L3:
This gene is one of several cytokine genes clustered on the q-arm of chromosome 17. Cytokines are a family of secreted
proteins involved in immunoregulatory and inflammatory processes. This protein binds to several chemokine receptors
including chemokine binding protein 2 and chemokine (C-C motif) receptor 5 (CCR5). CCR5 is a co-receptor for HIV, and
binding of this protein to CCR5 inhibits HIV entry. The copy number of this gene varies among individuals; most
individuals have 1-6 copies in the diploid genome, although rare individuals have zero or more than six copies. The
human genome reference assembly contains two full copies of the gene (CCL3L3 and CCL3L1) and a partial pseudogene.
This record represents the more centromeric full-length gene. (provided by RefSeq, Apr 2010)

UniProtKB/Swiss-Prot: CL3L1_HUMAN, P16619
Function: Chemotactic for lymphocytes and monocytes. Is a ligand for CCR1, CCR3 and CCR5. Is an inhibitor of
HIV-1-infection. The processed form LD78-beta(3-70) shows a 20-fold to 30-fold higher chemotactic activity and is a
very potent inhibitor of HIV-1-infection. LD78-beta(3-70) is also a ligand for CCR1, CCR3 and CCR5




(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_000017.10  NC_018928.1  NT_010799.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the CCL3L3 gene promoter:
         Pbx1a   AP-1   CUTL1   Ik-3   LCR-F1   MEF-2A   HSF2   c-Myb   aMEF-2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for CCL3L3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CCL3L3


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

Entrez Gene cytogenetic band: 17q21.1   Ensembl cytogenetic band:  17q12   HGNC cytogenetic band: 17q21.1

CCL3L3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CCL3L3 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M034523:  view genomic region     (about GC identifiers)

Start:
34,522,262 bp from pter      End:
34,524,157 bp from pter
Size:
1,896 bases      Orientation:
minus 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: CL3L1_HUMAN, P16619 (See protein sequence)
Recommended Name: C-C motif chemokine 3-like 1 precursor  
Size: 93 amino acids; 10161 Da
Subcellular location: Secreted
Secondary accessions: A6NGK6 B2RUX4 Q3B7A8 Q53YA5 Q96I68

Explore the universe of human proteins at neXtProt for CCL3L3: NX_P16619

Post-translational modifications:

  • The N-terminal processed forms LD78-beta(3-70) and LD78-beta(5-70) are produced by proteolytic cleavage after secretion
  • from peripheral blood monocytes. The cleavage to yield LD78-beta(3-70) is probably achieved by DPP41
  • View neXtProt modification sites for NX_P16619

  • CCL3L3 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_001001437.2  
    ENSEMBL proteins: 
     ENSP00000367605   ENSP00000377994  
    Reactome Protein details: P16619
    Human Recombinant Protein Products: 
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    Uscn Proteins for CCL3L3

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region TAS--
    GO:0005615extracellular space IEA--


    CCL3L3 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

    CCL3L3 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR000827 Chemokine_CC_CS
     IPR001811 Chemokine_IL8-like_dom

    Graphical View of Domain Structure for InterPro Entry P16619

    ProtoNet protein and cluster: P16619

    1 Blocks protein family: IPB000827 Small chemokine

    UniProtKB/Swiss-Prot: CL3L1_HUMAN, P16619
    Similarity: Belongs to the intercrine beta (chemokine CC) family


    (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: CL3L1_HUMAN, P16619
    Function: Chemotactic for lymphocytes and monocytes. Is a ligand for CCR1, CCR3 and CCR5. Is an inhibitor of
    HIV-1-infection. The processed form LD78-beta(3-70) shows a 20-fold to 30-fold higher chemotactic activity and is a
    very potent inhibitor of HIV-1-infection. LD78-beta(3-70) is also a ligand for CCR1, CCR3 and CCR5

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    Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008009chemokine activity NAS--


    CCL3L3 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

    Unified GeneCards pathways - 5/7 super-pathways (see all 7About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Class A/1 (Rhodopsin-like receptors)
    Class A/1 (Rhodopsin-like receptors)1.00
    Peptide ligand-binding receptors0.61
    GPCR ligand binding0.75
    2Signaling by GPCR
    Signaling by GPCR1.00
    Signal Transduction0.56
    3Chemokine receptors bind chemokines
    Chemokine receptors bind chemokines1.00
    4Rheumatoid arthritis
    Rheumatoid arthritis1.00
    5Chemokine Signaling
    Chemokine signaling pathway0.33

    Pathway sources
    See GeneCards unified pathways
    Show all pathways


    5/6        Reactome Pathways for CCL3L3 (see all 6)
        Peptide ligand-binding receptors
    Chemokine receptors bind chemokines
    Signal Transduction
    Signaling by GPCR
    GPCR ligand binding


    4         Kegg Pathways  (Kegg details for CCL3L3):
        Cytokine-cytokine receptor interaction
    Chemokine signaling pathway
    Chagas disease (American trypanosomiasis)
    Rheumatoid arthritis


    CCL3L3 for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CCL3L3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 21)

    5/21 Interacting proteins for CCL3L3 (P166193 ENSP000003676054) via UniProtKB, MINT, STRING, and/or I2D (see all 21)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CCR3P516773, ENSP000003500034I2D: score=4 STRING: ENSP00000350003
    CCR5P516813, ENSP000002923034I2D: score=4 STRING: ENSP00000292303
    CCBP2O005903, ENSP000002731454I2D: score=3 STRING: ENSP00000273145
    CCR1P322463, ENSP000002961404I2D: score=3 STRING: ENSP00000296140
    DPP4P274873, ENSP000003537314I2D: score=1 STRING: ENSP00000353731
    About this table

    Gene Ontology (GO): 4 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006935chemotaxis NAS--
    GO:0006954inflammatory response TAS1694014
    GO:0006955immune response IEA--
    GO:0008285negative regulation of cell proliferation TAS2271120


    CCL3L3 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 CCL3L3
    Search CenterWatch for drugs/clinical trials and news about CCL3L3 / CL3L1 

    (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 CCL3L3 gene: 
    NM_001001437.3  

    Unigene Cluster for CCL3L3:

    Chemokine (C-C motif) ligand 3-like 3
    Hs.454713  [show with all ESTs]
    Unigene Representative Sequence: BU933905
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000588817 ENST00000378354(uc002hle.2 uc002hlf.2) ENST00000589736
    ENST00000394484

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    Additional cDNA sequence: 

    BC007783.2 BC146919.1 BC147008.1 BC147013.1 BT006783.1 

    4 DOTS entries:

    DT.449023  DT.100035793  DT.120948225  DT.95371117 

    10 AceView cDNA sequences:

    BC063472 AA908200 BI772489 NM_001001437 BM994018 BC007783 BG231670 AI302038 
    BF662985 AW953754 

    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

    CCL3L3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GCACCAAAGC

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

    About this image
    See CCL3L3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for CCL3L3

    SOURCE GeneReport for Unigene cluster: Hs.454713
        SABiosciences Custom PCR Arrays for CCL3L3
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    In Situ
    Assay Products:
     

     
    Search Advanced Cell Diagnostics for RNAscope RNA in situ hybridization assays for CCL3L3

    (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 chordates.

    Orthologs for CCL3L3 gene from 2/8 species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves CCL41 chemokine (C-C motif) ligand 4 70(n)
    55.56(a)
      395551  NM_001030360.2  NP_001025531.2 
    zebrafish
    (Danio rerio)
    Actinopterygii zgc:1937066
    si:dkeyp-59a8.36
    (see all 6)
    si:dkeyp-59a8.3
    (see all 6)
    35(a)
    29(a)
    (see all 6)
    many ↔ many
    many ↔ many
    (see all 6)
    25(25902180-25904281)
    20(38310380-38311158)


    ENSEMBL Gene Tree for CCL3L3 (if available)
    TreeFam Gene Tree for CCL3L3 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for CCL3L3 gene
    CCL3L11 2  CCL152  CCL162  CCL22  CCL142  CCL242  CCL4L12  CCL112  
    CCL4L22  CCL72  CCL52  CCL232  CCL42  CCL82  CCL132  CCL262  
    CCL32  CCL182  
    18/30 SIMAP similar genes for CCL3L3 using alignment to 2 protein entries:     CL3L1_HUMAN (see all proteins) (see all similar genes):
    CCL3L1    CCL3    CCL4L2    LOC728835    CCL14    CCL4L1
    CCL18    CCL4    CCL5    CCL16    CCL11    CCL7
    MCP-3    CCL15    CCL2    CCL13    CCL24    CCL26

    CCL3L3 for paralogs           About GeneDecksing



    (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

    UniProtKB/Swiss-Prot: CL3L1_HUMAN, P16619
    Polymorphism: The copy number of the CCL3L1 gene varies among individuals; most individuals have 1-6 copies in the
    diploid genome, although rare individuals have zero or more than 6 copies


    10/12 NCBI SNPs in CCL3L3 are shown (see all 12    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1431911901,2
    C--34521952(+) ACTCA-/GTAGGA 1 -- ds50010--------
    rs2013436471,2
    F--34522695(+) CACTCA/GGCTCC 2 P L mis11Minor allele frequency- G:0.17EU 119
    rs22826741,2
    C,--34524523(-) TGATCC/TGCAGC 1 -- us2k13Minor allele frequency- T:0.00NA CSA 5
    rs2003663561,2
    ----34522497(+) AAATTA/TTAAAA 1 -- ut310--------
    rs1999089061,2
    ----34521954(+) TCAGTA/TGGAGG 1 -- ds50010--------
    rs1386762151,2
    ----34522986(+) CCTGTC/TCCTTT 1 -- int10--------
    rs1469432371,2
    ----34524749(+) AAAAA-/AGAATT 1 -- us2k10--------
    rs2010792561,2
    ----34522125(+) CAGAAC/TTTTGT 1 -- ds50010--------
    rs2019433281,2
    ----34521815(+) TTTACA/GTGCTG 1 -- ds50010--------
    rs2010259801,2
    ----34523390(+) GGTTGA/CGGAGG 1 -- int10--------

    HapMap Linkage Disequilibrium report for CCL3L3 (34522262 - 34524157 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 28 variations for CCL3L3
         15/28 CNVs (see all 28): 77573 37558 7154 72878 88435 8841 72884 88444 30824 35451 35450 88441 5003 77579 72882

    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, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    CCL3L3 for disorders           About GeneDecksing

    OMIM gene information: 609468    OMIM disorders: --

    5 diseases for CCL3L3:    About MalaCards
    chagas disease    rheumatoid arthritis    trypanosomiasis    arthritis
    immunodeficiency


    Export disorders for CCL3L3 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 CCL3L3 gene, integrated from 9 sources (see all 19):
    (articles sorted by number of sources associating them with CCL3L3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
    2. Structures of human genes coding for cytokine LD78 and their expression. (PubMed id 1694014)1, 2 Nakao M.... Shimada K. (1990)
    3. Three human homologs of a murine gene encoding an inhibitor of stem cell proliferation. (PubMed id 2271120)1, 2 Blum S.... Forsdyke D.R. (1990)
    4. Two inflammatory mediator cytokine genes are closely linked and variably amplified on chromosome 17q. (PubMed id 1972563)1, 2 Irving S.G.... Kelly K. (1990)
    5. CCL3L1 and CCL4L1: variable gene copy number in adolescents with and without human immunodeficiency virus type 1 (HIV-1) infection. (PubMed id 17330138)2 Shao W....Kaslow R.A. (2007)
    6. Proteolysis of macrophage inflammatory protein-1alpha isoforms LD78beta and LD78alpha by neutrophil-derived serine proteases. (PubMed id 15728180)1 Ryu O.H....Hart T.C. (2005)
    7. CCL3L1 and CCL4L1 chemokine genes are located in a segmental duplication at chromosome 17q12. (PubMed id 15028295)1 Modi W.S. (2004)
    8. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    9. Differential recognition and scavenging of native and truncated macrophage-derived chemokine (macrophage-derived chemokine/CC chemokine ligand 22) by the D6 decoy receptor. (PubMed id 15067078)1 Bonecchi R....Mantovani A. (2004)
    10. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PubMed id 15340161)2 Zhang Z. and Henzel W.J. (2004)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 414062 HGNC: 30554 AceView: MGC12815 Ensembl:ENSG00000256515 euGenes: HUgn414062
    ECgene: CCL3L3 Kegg: 414062 H-InvDB: CCL3L3

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    About This Section
    NameDescription
    PharmGKB entry for CCL3L3 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
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    Patent Information for CCL3L3 gene:
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