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    Lum lumican [ Mus musculus (house mouse) ]

    Gene ID: 17022, updated on 5-Mar-2024

    Summary

    Official Symbol
    Lumprovided by MGI
    Official Full Name
    lumicanprovided by MGI
    Primary source
    MGI:MGI:109347
    See related
    Ensembl:ENSMUSG00000036446 AllianceGenome:MGI:109347
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Ldc; SLRR2D
    Summary
    Predicted to enable collagen binding activity. Involved in positive regulation of transforming growth factor beta1 production. Acts upstream of or within positive regulation of transcription by RNA polymerase II. Located in extracellular matrix. Is expressed in several structures, including alimentary system; ear; genitourinary system; heart and pericardium; and nervous system. Used to study Ehlers-Danlos syndrome classic type 1. Human ortholog(s) of this gene implicated in carotid artery disease; coronary artery disease; and pancreatic cancer. Orthologous to human LUM (lumican). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in bladder adult (RPKM 192.5), limb E14.5 (RPKM 161.5) and 13 other tissues See more
    Orthologs
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    Genomic context

    Location:
    10 C3; 10 50.32 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (97401363..97408565)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (97565501..97572703)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 34114 Neighboring gene microRNA 3966 Neighboring gene decorin Neighboring gene STARR-seq mESC enhancer starr_27690 Neighboring gene STARR-seq mESC enhancer starr_27691 Neighboring gene RIKEN cDNA 4930473O22 gene Neighboring gene keratocan

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (4)  1 citation
    • Endonuclease-mediated (4) 

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General protein information

    Preferred Names
    lumican
    Names
    KSPG lumican
    keratan sulfate proteoglycan lumican

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_008524.2NP_032550.2  lumican precursor

      See identical proteins and their annotated locations for NP_032550.2

      Status: VALIDATED

      Source sequence(s)
      AK075737, CF731113
      Consensus CDS
      CCDS24142.1
      UniProtKB/Swiss-Prot
      P51885, Q3TP25, Q99JZ3, Q9CXK0
      Related
      ENSMUSP00000040877.5, ENSMUST00000038160.6
      Conserved Domains (4) summary
      smart00013
      Location:3771
      LRRNT; Leucine rich repeat N-terminal domain
      cd00116
      Location:66267
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00033
      Location:6891
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:66128
      LRR_8; Leucine rich repeat

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000076.7 Reference GRCm39 C57BL/6J

      Range
      97401363..97408565
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)