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    Loxl3 lysyl oxidase-like 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 312478, updated on 21-Jul-2018

    Summary

    Official Symbol
    Loxl3provided by RGD
    Official Full Name
    lysyl oxidase-like 3provided by RGD
    Primary source
    RGD:1311011
    See related
    Ensembl:ENSRNOG00000061373
    Gene type
    protein coding
    RefSeq status
    INFERRED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Expression
    Biased expression in Muscle (RPKM 32.1), Heart (RPKM 31.2) and 9 other tissues See more
    Orthologs

    Genomic context

    See Loxl3 in Genome Data Viewer
    Location:
    4q34
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (113866782..113883713)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 4 NC_005103.3 (178552500..178568813)

    Chromosome 4 - NC_005103.4Genomic Context describing neighboring genes Neighboring gene meiosis 1 associated protein Neighboring gene similar to 40S ribosomal protein S25 Neighboring gene docking protein 1 Neighboring gene HtrA serine peptidase 2 Neighboring gene AUP1, lipid droplet regulating VLDL assembly factor Neighboring gene DEAQ box RNA-dependent ATPase 1

    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

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    copper ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    fibronectin binding IEA
    Inferred from Electronic Annotation
    more info
     
    fibronectin binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein-lysine 6-oxidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    protein-lysine 6-oxidase activity IEA
    Inferred from Electronic Annotation
    more info
     
    protein-lysine 6-oxidase activity ISO
    Inferred from Sequence Orthology
    more info
     
    scavenger receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    collagen fibril organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    epithelial to mesenchymal transition IEA
    Inferred from Electronic Annotation
    more info
     
    epithelial to mesenchymal transition ISO
    Inferred from Sequence Orthology
    more info
     
    fibronectin fibril organization IEA
    Inferred from Electronic Annotation
    more info
     
    fibronectin fibril organization ISO
    Inferred from Sequence Orthology
    more info
     
    inflammatory response IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    lung development IEA
    Inferred from Electronic Annotation
    more info
     
    lung development ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of T-helper 17 cell lineage commitment IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of T-helper 17 cell lineage commitment ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    peptidyl-lysine oxidation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    peptidyl-lysine oxidation IEA
    Inferred from Electronic Annotation
    more info
     
    peptidyl-lysine oxidation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of integrin-mediated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of integrin-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    receptor-mediated endocytosis IEA
    Inferred from Electronic Annotation
    more info
     
    roof of mouth development IEA
    Inferred from Electronic Annotation
    more info
     
    roof of mouth development ISO
    Inferred from Sequence Orthology
    more info
     
    somite development IEA
    Inferred from Electronic Annotation
    more info
     
    somite development ISO
    Inferred from Sequence Orthology
    more info
     
    spinal cord development IEA
    Inferred from Electronic Annotation
    more info
     
    spinal cord development ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    extracellular region ISO
    Inferred from Sequence Orthology
    more info
     
    extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    extracellular space IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular space ISO
    Inferred from Sequence Orthology
    more info
     
    membrane IEA
    Inferred from Electronic Annotation
    more info
     
    nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    lysyl oxidase homolog 3
    NP_001101336.1
    XP_008761245.1

    NCBI Reference Sequences (RefSeq)

    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_001107866.2NP_001101336.1  lysyl oxidase homolog 3 precursor

      See identical proteins and their annotated locations for NP_001101336.1

      Status: INFERRED

      Source sequence(s)
      AC130866
      UniProtKB/TrEMBL
      D3ZP82
      Related
      ENSRNOP00000074073.1, ENSRNOT00000081196.1
      Conserved Domains (3) summary
      smart00202
      Location:308408
      SR; Scavenger receptor Cys-rich
      pfam00530
      Location:54146
      SRCR; Scavenger receptor cysteine-rich domain
      pfam01186
      Location:531725
      Lysyl_oxidase; Lysyl oxidase

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005103.4 Reference Rnor_6.0 Primary Assembly

      Range
      113866782..113883713
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008763023.2XP_008761245.1  lysyl oxidase homolog 3 isoform X1

      Conserved Domains (3) summary
      smart00202
      Location:347447
      SR; Scavenger receptor Cys-rich
      pfam00530
      Location:54146
      SRCR; Scavenger receptor cysteine-rich domain
      pfam01186
      Location:570764
      Lysyl_oxidase; Lysyl oxidase

    Alternate Rn_Celera

    Genomic

    1. AC_000072.1 Alternate Rn_Celera

      Range
      104535320..104551634
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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