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

LUM Gene

protein-coding   GIFtS: 68
GCID: GC12M091430

Lumican


(Previous symbol: LDC)
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
lumican1 2
LDC1 2 3 5
Lumican Proteoglycan1 2
Keratan Sulfate Proteoglycan Lumican2 3
SLRR2D2 3
KSPG Lumican2 3

External Ids:    HGNC: 67241   Entrez Gene: 40602   Ensembl: ENSG000001393297   OMIM: 6006165   UniProtKB: P518843   

Export aliases for LUM gene to outside databases

Previous GC identifers: GC12M090819 GC12M091944 GC12M089999 GC12M088565


(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 LUM Gene:
This gene encodes a member of the small leucine-rich proteoglycan (SLRP) family that includes decorin, biglycan,
fibromodulin, keratocan, epiphycan, and osteoglycin. In these bifunctional molecules, the protein moiety binds
collagen fibrils and the highly charged hydrophilic glycosaminoglycans regulate interfibrillar spacings. Lumican
is the major keratan sulfate proteoglycan of the cornea but is also distributed in interstitial collagenous
matrices throughout the body. Lumican may regulate collagen fibril organization and circumferential growth,
corneal transparency, and epithelial cell migration and tissue repair. (provided by RefSeq, Jul 2008)

GeneCards Summary for LUM Gene: 
LUM (lumican) is a protein-coding gene. Diseases associated with LUM include posterior amorphous corneal dystrophy, and macular corneal dystrophy, and among its related super-pathways are Metabolism of carbohydrates and Keratan sulfate/keratin metabolism. GO annotations related to this gene include extracellular matrix structural constituent and collagen binding. An important paralog of this gene is PODN.

Gene Wiki entry for LUM 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000012.11  NC_018923.2  NT_029419.12  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the LUM gene promoter:
         NF-YB   PPAR-gamma1   CBF-B   AML1a   NF-YA   Meis-1a   PPAR-gamma2   NF-Y   Meis-1b   Meis-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidLUM promoter sequence
   Search SABiosciences Chromatin IP Primers for LUM

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


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

Entrez Gene cytogenetic band: 12q21.3-q22   Ensembl cytogenetic band:  12q21.33   HGNC cytogenetic band: 12q21.3-q22

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

GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12M091430:  view genomic region     (about GC identifiers)

Start:
91,496,406 bp from pter      End:
91,505,608 bp from pter
Size:
9,203 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: LUM_HUMAN, P51884 (See protein sequence)
Recommended Name: Lumican precursor  
Size: 338 amino acids; 38429 Da
Subunit: Binds to laminin (By similarity)
Subcellular location: Secreted, extracellular space, extracellular matrix (By similarity)
Developmental stage: Present in the extracellular matrix of human articular cartilage at all ages, although its
abundance is far greater in the adult. In the adult cartilage lumican exists predominantly in a glycoprotein form
lacking keratan sulfate, whereas the juvenile form of the molecule is a proteoglycan
Secondary accessions: B2R6R5 Q96QM7

Explore the universe of human proteins at neXtProt for LUM: NX_P51884

Explore proteomics data for LUM at MOPED 

Post-translational modifications:

  • UniProtKB: Sulfated on tyrosine residue(s)
  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_P51884

  • LUM Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    LUM Protein Expression
    REFSEQ proteins: NP_002336.1  
    ENSEMBL proteins: 
     ENSP00000266718  
    Reactome Protein details: P51884
    Human Recombinant Protein Products for LUM: 
    Browse Purified and Recombinant Proteins at EMD Millipore
    R&D Systems Recombinant & Natural Proteins for LUM (Lumican)
    Browse recombinant and purified proteins available from Enzo Life Sciences
    OriGene Purified Protein for LUM
    OriGene Protein Over-expression Lysate for LUM
    OriGene MassSpec for LUM 
    OriGene Custom Protein Services for LUM
    GenScript Custom Purified and Recombinant Proteins Services for LUM
    Novus Biologicals LUM Proteins
    Novus Biologicals LUM Lysates
    Sino Biological Recombinant Protein for LUM
    Sino Biological Cell Lysate for LUM 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for LUM 

    Gene Ontology (GO): 5/7 cellular component terms (GO ID links to tree view) (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region TAS--
    GO:0005578proteinaceous extracellular matrix TAS7665616
    GO:0005583fibrillar collagen IDA10734230
    GO:0005615extracellular space IDA--
    GO:0005796Golgi lumen TAS--

    LUM for ontologies           About GeneDecksing



    LUM Antibody Products: 
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    ThermoFisher Antibodies for LUM
    LSBio Antibodies in human, mouse, rat for LUM 

    Assay Products for LUM: 
    Browse Kits and Assays available from EMD Millipore
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    Cloud-Clone Corp. ELISAs for LUM 
    Cloud-Clone Corp. CLIAs for LUM


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    SLRR: Proteoglycans / Extracellular Matrix : Small leucine-rich repeats

    4 InterPro protein domains:
     IPR001611 Leu-rich_rpt
     IPR027219 Lumican
     IPR003591 Leu-rich_rpt_typical-subtyp
     IPR000372 LRR-contain_N

    Graphical View of Domain Structure for InterPro Entry P51884

    ProtoNet protein and cluster: P51884

    2 Blocks protein domains:
    IPB000372 Cysteine-rich flanking region
    IPB001611 Leucine-rich repeat signature


    UniProtKB/Swiss-Prot: LUM_HUMAN, P51884
    Similarity: Belongs to the small leucine-rich proteoglycan (SLRP) family. SLRP class II subfamily
    Similarity: Contains 11 LRR (leucine-rich) repeats
    Similarity: Contains 1 LRRNT domain


    LUM 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,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:
         Genatlas biochemistry entry for LUM:
    lumican,keratan sulfate proteoglycan one of the three major constituents of the corneal stroma,playing a role in
    the regulation of collagen assembly into fibrils in various connective tissues,small-leucine-rich proteoglycans
    family

         Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005201extracellular matrix structural constituent NAS10892350
    GO:0005515protein binding ----
    GO:0005518collagen binding IDA10892350
         
    LUM for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for LUM:
     Decreased viability with carbo 

         14 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Lum):
     behavior/neurological  cardiovascular system  cellular  digestive/alimentary  growth/size 
     hematopoietic system  homeostasis/metabolism  immune system  integument  limbs/digits/tail 
     muscle  reproductive system  skeleton  vision/eye 

    LUM for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-outs for LUM: Lumtm1Chak Lumtm1Wwk

       inGenious Targeting Laboratory - Custom generated mouse model solutions for LUM 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for LUM

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

    miRNA
    Products:
        
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat LUM
    3 QIAGEN miScript miRNA Assays for microRNAs that regulate LUM:
    hsa-miR-33a* hsa-miR-4307 hsa-miR-494
    SwitchGear 3'UTR luciferase reporter plasmidLUM 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
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    Gene Editing
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    Sirion Biotech Customized adenovirus for overexpression of LUM

    Clone
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    Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene clones in human, mouse for LUM (see all 8)
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    GenScript: all cDNA clones in your preferred vector: LUM (NM_002345)
    Sino Biological Human cDNA Clone for LUM
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for LUM
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LUM
    Sirion Biotech Customized lentivirus for stable overexpression of LUM 
                         Customized lentivirus expression plasmids for stable overexpression of LUM 

    Cell Line
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    LifeMap BioReagents: cell line associated with LUM: PureStem Z11, Meso Progenitor
    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LUM


    (Pathways according to EMD Millipore, 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 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 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for LUM About   (see all 8)                                                                                              See pathways by source

    SuperPathSelected contained pathways About (see all per SuperPath)
    1MPS IIIC - Sanfilippo syndrome C
    MPS IIIC - Sanfilippo syndrome C0.48
    Glycosaminoglycan metabolism0.48
    MPS IV - Morquio syndrome A0.48
    MPS IIID - Sanfilippo syndrome D0.48
    MPS VI - Maroteaux-Lamy syndrome0.48
    MPS I - Hurler syndrome0.48
    MPS IV - Morquio syndrome B0.48
    MPS IX - Natowicz syndrome0.48
    2Keratan sulfate biosynthesis
    Keratan sulfate biosynthesis0.82
    Keratan sulfate degradation0.38
    Keratan sulfate/keratin metabolism0.82
    3Metabolism
    Metabolism0.40
    4Collagen biosynthesis and modifying enzymes
    Extracellular matrix organization0.39
    5Non-integrin membrane-ECM interactions
    ECM proteoglycans0.38

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 EMD Millipore Pathway for LUM
        Metalloproteases in connective tissue degradation



    5/21        Reactome Pathways for LUM (see all 21)
        MPS VI - Maroteaux-Lamy syndrome
    Metabolism
    Disease
    Keratan sulfate/keratin metabolism
    ECM proteoglycans


    1         Kegg Pathway  (Kegg details for LUM):
        Proteoglycans in cancer


    LUM for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for LUM

    STRING Interaction Network Preview (showing 5 interactants - click image to see 23)

    5/29 Interacting proteins for LUM (P518842, 3 ENSP000002667184) via UniProtKB, MINT, STRING, and/or I2D (see all 29)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    MMP14P502813, ENSP000003082084I2D: score=2 STRING: ENSP00000308208
    TRA2BP629953, ENSP000004169594I2D: score=2 STRING: ENSP00000416959
    COL1A2P081233, ENSP000002972684I2D: score=2 STRING: ENSP00000297268
    CXCL2P198753I2D: score=1 
    WNK1Q9H4A33I2D: score=1 
    About this table

    Gene Ontology (GO): 5/12 biological process terms (GO ID links to tree view) (see all 12):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005975carbohydrate metabolic process TAS--
    GO:0007601visual perception IEA--
    GO:0014070response to organic cyclic compound IEA--
    GO:0018146keratan sulfate biosynthetic process TAS--
    GO:0030199collagen fibril organization NAS10892350

    LUM for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, 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 LUM

    Search CenterWatch for drugs/clinical trials and news about LUM

    (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,
    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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for LUM gene: 
    NM_002345.3  

    Unigene Cluster for LUM:

    Lumican
    Hs.406475  [show with all ESTs]
    Unigene Representative Sequence: BG114678
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000266718(uc001tbm.3) ENST00000548071 ENST00000546642
    miRNA
    Products:
         
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat LUM
    3 QIAGEN miScript miRNA Assays for microRNAs that regulate LUM:
    hsa-miR-33a* hsa-miR-4307 hsa-miR-494
    SwitchGear 3'UTR luciferase reporter plasmidLUM 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
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    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat LUM
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    OriGene ORF clones in mouse, rat for LUM
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: LUM (NM_002345)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for LUM
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LUM
    Sirion Biotech Customized lentivirus for stable overexpression of LUM 
                         Customized lentivirus expression plasmids for stable overexpression of LUM 
    Primer
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    OriGene qPCR primer pairs and template standards for LUM
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat LUM
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LUM

    Additional mRNA sequence: 

    AK223177.1 AK312682.1 BC007038.1 BC035997.1 BT006707.1 U18728.1 U21128.1 

    24/32 DOTS entries (see all 32):

    DT.92466681  DT.100889137  DT.100889151  DT.95165813  DT.100889127  DT.97795167  DT.95165763  DT.100889116 
    DT.100889145  DT.121108384  DT.102843961  DT.95165745  DT.100889112  DT.101970518  DT.100889104  DT.100889155 
    DT.121108482  DT.121108426  DT.95165711  DT.100889119  DT.95165705  DT.100889144  DT.100889150  DT.121108402 

    24/1083 AceView cDNA sequences (see all 1083):

    BM856678 AU138631 BX357224 BX402754 CR622333 AI983667 AA973256 AI913049 
    BP373215 AU138679 AI627741 AI961919 BX417687 AI360686 CR610309 AA010935 
    AU117865 AW167068 U21128 AI687790 AI249973 AL514022 AU138544 AW518875 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for LUM    About this scheme

    ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3a · 3b · 3c
    SP1:                                                      
    SP2:                    -     -                           
    SP3:                    -                                 


    ECgene alternative splicing isoforms for LUM

    (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

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


    LUM expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/21 selected tissues (see all 21) fully expand
     
     Cartilage (Muscoskeletal System)    fully expand to see all 8 entries
             Intervertebral Disc Nucleus Pulposus Cells Sacral Intervertebral Disc
             HyStem+TGFbeta3+GDF5-induced E15 cells
             Normal Human Articular chondrocytes (NHAC)   
     
     Fibroblast
             Detroit 551
             X-gene Foreskin Fibroblasts   
     
     Bone (Muscoskeletal System)    fully expand to see all 4 entries
             Mesenchymal Condensate Cells Zeugopod
             Thoracic Rib
             HyStem+TGFbeta3+GDF5-induced E15 cells
             Normal Human osteoblasts (NHOST)   
     
     Heart (Cardiovascular System)    fully expand to see all 4 entries
             Atrioventricular Node Cells Atrioventricular Node
             Cardiomyocyte-like progenitor cells ( Derivation of cardiomyocytes from pluripotent...
             Human Cardiac Myocytes-adult (HCM-a)   
     
     Tendon & Ligament (Muscoskeletal System)    fully expand to see all 4 entries
             Early Tenocyte Cells Limb Tendon Primordia

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

    SOURCE GeneReport for Unigene cluster: Hs.406475

    UniProtKB/Swiss-Prot: LUM_HUMAN, P51884
    Tissue specificity: Cornea and other tissues

        SABiosciences Custom PCR Arrays for LUM
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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LUM
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LUM

    (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 LUM gene from 5/12 species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Lum1 , 5 lumican1, 5 82.45(n)1
    86.69(a)1
      10 (50.32 cM)5
    170221  NM_008524.21  NP_032550.21 
     975655015 
    chicken
    (Gallus gallus)
    Aves LUM1 lumican 69.94(n)
    70.24(a)
      417891  XM_416135.3  XP_416135.1 
    lizard
    (Anolis carolinensis)
    Reptilia LUM6
    Uncharacterized protein
    64(a)
    1 ↔ 1
    5(32342766-32353400)
    African clawed frog
    (Xenopus laevis)
    Amphibia MGC645272 hypothetical protein MGC64527 73.93(n)    BC054282.1 
    zebrafish
    (Danio rerio)
    Actinopterygii lum1 lumican 57.35(n)
    51.75(a)
      415149  NM_001002059.1  NP_001002059.1 


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for LUM gene
    PODN2  FLRT12  PODNL12  FMOD2  KERA2  PRELP2  FLRT32  OMD2  
    ASPN2  BGN2  DCN2  FLRT22  ECM22  
    8 SIMAP similar genes for LUM using alignment to 1 protein entry:     LUM_HUMAN:
    FMOD    KERA    MST161    PRELP    OMD    ASPN
    DCN    BGN

    LUM 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) 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

    10/285 SNPs in LUM are shown (see all 285)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 12 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs778621481,2
    C,F--91496761(+) CTCCAC/TACATA 1 -- ds50011Minor allele frequency- T:0.16WA 118
    rs787732721,2
    C,F--91496764(+) CACACA/GTAGGT 1 -- ds50011Minor allele frequency- G:0.16WA 118
    rs117561,2
    C,F,O--91496824(+) GAGTAT/GTTATC 1 -- ds50016Minor allele frequency- G:0.11MN NA 634
    rs1421985391,2
    --91497004(+) TTTCTC/TGACAA 1 -- ds50010--------
    rs742378721,2
    C--91497020(+) GAGTGA/GGTGCT 1 -- ds50013Minor allele frequency- G:0.16CSA WA EA 240
    rs797526081,2
    C,F--91497040(+) TAGCAG/TCTTCT 1 -- ds50011Minor allele frequency- T:0.03EA 120
    rs170187151,2
    C,F--91497053(+) TCTAAT/CAGAAT 1 -- ds50013Minor allele frequency- C:0.01NA 142
    rs1459264151,2
    --91497175(+) GTGAAC/TGCTAG 1 -- ds50010--------
    rs1837924871,2
    --91497240(+) AGGCCA/GGAGAT 1 -- ut310--------
    rs37418361,2
    C,F,H--91497272(-) TACATA/CAAACA 1 -- ut31 ese314Minor allele frequency- C:0.09NS EA CSA 2098

    HapMap Linkage Disequilibrium report for LUM (91496406 - 91505608 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for LUM:    About this table     
    Variant IDTypeSubtypePubMed ID
    dgv210n27CNV Loss19166990
    nsv899429CNV Loss21882294
    nsv899425CNV Gain21882294
    nsv899428CNV Gain21882294


    Human Gene Mutation Database (HGMD): LUM
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing LUM
    DNA2.0 Custom Variant and Variant Library Synthesis for LUM

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 600616    OMIM disorders: --

    20/27 diseases for LUM (see all 27):    About MalaCards
    posterior amorphous corneal dystrophy    macular corneal dystrophy    corneal dystrophy    morquio syndrome b
    breast cancer susceptibility    myopia    fatty liver disease    leprosy
    lung adenocarcinoma    liver disease    lateral sclerosis    amyotrophic lateral sclerosis
    osteosarcoma    cervical cancer    pancreatic cancer    hepatitis b
    cervicitis    pancreatitis    adenocarcinoma    systemic lupus erythematosus

    1 disease from the University of Copenhagen DISEASES database for LUM:
    Myopia

    LUM for disorders           About GeneDecksing

    Genetic Association Database (GAD): LUM
    Human Genome Epidemiology (HuGE) Navigator: LUM (46 documents)

    Export disorders for LUM 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 LUM gene, integrated from 9 sources (see all 72):
    (articles sorted by number of sources associating them with LUM)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Primary structure of human lumican (keratan sulfate proteoglycan) and localization of the gene (LUM) to chromosome 12q21.3-q22. (PubMed id 7558030)1, 2, 3, 9 Chakravarti S....Hassell J.R. (1995)
    2. Association of the lumican gene functional 3'-UTR pol ymorphism with high myopia. (PubMed id 19643966)1, 4, 9 Lin H.J....Tsai F.J. (2010)
    3. Variation at the NFATC2 locus increases the risk of t hiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipr il and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (2010)
    4. The association between lumican gene polymorphisms an d high myopia. (PubMed id 20010793)1, 4 Lin H.J....Tsai F.J. (2009)
    5. High myopia is not associated with the SNPs in the TGIF, lumican, TGFB1, and HGF genes. (PubMed id 19060265)1, 4 Wang P....Zhang Q. (2009)
    6. The association of haplotype at the lumican gene with high myopia susceptibility in Taiwanese patients. (PubMed id 19616852)1, 4 Chen Z.T....Lin L.L. (2009)
    7. Association of breast cancer susceptibility variants with risk of pancreatic cancer. (PubMed id 19843670)1, 4 Couch F.J....Petersen G.M. (2009)
    8. Genetic variation in stromal proteins decorin and lumican with breast cancer: investigations in two case-control studies. (PubMed id 19036156)1, 4 Kelemen L.E....Vachon C.M. (2008)
    9. The association of single nucleotide polymorphisms in the 5'-regulatory region of the lumican gene with susceptibility to high myopia in Taiwan. (PubMed id 16902402)1, 4 Wang I.J....Lin L.L. (2006)
    10. Human plasma N-glycoproteome analysis by immunoaffinity subtraction, hydrazide chemistry, and mass spectrometry. (PubMed id 16335952)1, 2 Liu T.... Smith R.D. (2005)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     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)
    About This Section
    Entrez Gene: 4060 HGNC: 6724 AceView: LUM Ensembl:ENSG00000139329 euGenes: HUgn4060
    ECgene: LUM Kegg: 4060 H-InvDB: LUM

    (According to HUGE)
    About This Section
      --

    (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 LUM Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for LUM Genetics and Cytogenetics in Oncology and Haematology

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

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    About This Section

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     Proteins for LUM
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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