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    Ecm1 extracellular matrix protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 116662, updated on 9-Dec-2024

    Summary

    Official Symbol
    Ecm1provided by RGD
    Official Full Name
    extracellular matrix protein 1provided by RGD
    Primary source
    RGD:620357
    See related
    EnsemblRapid:ENSRNOG00000021166 AllianceGenome:RGD:620357
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable interleukin-2 receptor binding activity and protease binding activity. Predicted to be involved in several processes, including negative regulation of bone mineralization; positive regulation of canonical NF-kappaB signal transduction; and positive regulation of endothelial cell proliferation. Predicted to act upstream of or within several processes, including regulation of T cell migration; regulation of type 2 immune response; and skeletal system development. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Human ortholog(s) of this gene implicated in lipoid proteinosis. Orthologous to human ECM1 (extracellular matrix protein 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 296.4), Heart (RPKM 199.9) and 8 other tissues See more
    Orthologs
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    Genomic context

    See Ecm1 in Genome Data Viewer
    Location:
    2q34
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (185976439..185981656, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (183287491..183292729, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (197855468..197860973, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene ADAMTS-like 4 Neighboring gene uncharacterized LOC120100878 Neighboring gene uncharacterized LOC120100879 Neighboring gene threonyl-tRNA synthetase 2, mitochondrial Neighboring gene regulation of nuclear pre-mRNA domain containing 2 Neighboring gene transfer RNA proline (anticodon AGG) 87

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables interleukin-2 receptor binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables interleukin-2 receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protease binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protease binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in angiogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in biological_process ND
    No biological Data available
    more info
     
    involved_in biomineral tissue development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chondrocyte development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within chondrocyte development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in endochondral bone growth IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within endochondral bone growth ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of bone mineralization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of bone mineralization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of bone mineralization ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of cytokine-mediated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within negative regulation of cytokine-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of peptidase activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of peptidase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in ossification IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of angiogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of angiogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of angiogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    involved_in positive regulation of endothelial cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of endothelial cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of endothelial cell proliferation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of T cell migration IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of T cell migration ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of bone mineralization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within regulation of bone mineralization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of type 2 immune response IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of type 2 immune response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in signal transduction IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    is_active_in collagen-containing extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in collagen-containing extracellular matrix IEA
    Inferred from Electronic Annotation
    more info
     
    located_in collagen-containing extracellular matrix ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in extracellular space IEA
    Inferred from Electronic Annotation
    more info
     
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    extracellular matrix protein 1
    Names
    secretory component p85

    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_053882.1NP_446334.1  extracellular matrix protein 1 precursor

      Status: PROVISIONAL

      Source sequence(s)
      BC085879
      UniProtKB/Swiss-Prot
      Q5U2S9, Q62894
      UniProtKB/TrEMBL
      A0A8L2QGP4, A6K307
      Related
      ENSRNOP00000028740.5, ENSRNOT00000028740.7
      Conserved Domains (1) summary
      pfam05782
      Location:22562
      ECM1; Extracellular matrix protein 1 (ECM1)

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086020.1 Reference GRCr8

      Range
      185976439..185981656 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006232942.5XP_006233004.1  extracellular matrix protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8L2QGP4
      Conserved Domains (1) summary
      pfam05782
      Location:22561
      ECM1; Extracellular matrix protein 1 (ECM1)
    2. XM_063281170.1XP_063137240.1  extracellular matrix protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A8L2QGP4
    3. XM_039101580.2XP_038957508.1  extracellular matrix protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A8L2QGP4
      Related
      ENSRNOP00000105411.1, ENSRNOT00000147837.1
      Conserved Domains (1) summary
      pfam05782
      Location:22544
      ECM1; Extracellular matrix protein 1 (ECM1)