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    Loxl4 lysyl oxidase-like 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 309380, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Loxl4provided by RGD
    Official Full Name
    lysyl oxidase-like 4provided by RGD
    Primary source
    RGD:1308588
    See related
    EnsemblRapid:ENSRNOG00000015727 AllianceGenome:RGD:1308588
    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 protein-lysine 6-oxidase activity. Predicted to be involved in collagen fibril organization. Predicted to be located in extracellular region. Predicted to be part of receptor complex. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Orthologous to human LOXL4 (lysyl oxidase like 4). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Liver (RPKM 71.3), Kidney (RPKM 37.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Loxl4 in Genome Data Viewer
    Location:
    1q54
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (251345445..251365640, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (241396183..241416385, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (261833365..261853599, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene cartilage acidic protein 1 Neighboring gene uncharacterized LOC120100039 Neighboring gene R3H domain and coiled-coil containing 1-like Neighboring gene uncharacterized LOC134484050 Neighboring gene small nucleolar RNA SNORA17

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

    Bibliography

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    Related articles in PubMed

    1. Molecular cloning and biological activity of a novel lysyl oxidase-related gene expressed in cartilage. Ito H, et al. J Biol Chem, 2001 Jun 29. PMID 11292829
    2. Structural basis for endosomal trafficking of diverse transmembrane cargos by PX-FERM proteins. Ghai R, et al. Proc Natl Acad Sci U S A, 2013 Feb 19. PMID 23382219, Free PMC Article
    3. Proteomic analysis of human parotid gland exosomes by multidimensional protein identification technology (MudPIT). Gonzalez-Begne M, et al. J Proteome Res, 2009 Mar. PMID 19199708, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables copper ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein-lysine 6-oxidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein-lysine 6-oxidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in collagen fibril organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in collagen-containing extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular region ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of receptor complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    lysyl oxidase homolog 4
    NP_001101062.1
    XP_006231455.1
    XP_038936042.1

    NCBI Reference Sequences (RefSeq)

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    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_001107592.1 → NP_001101062.1  lysyl oxidase homolog 4 precursor

      See identical proteins and their annotated locations for NP_001101062.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473986
      UniProtKB/TrEMBL
      A6JHB6, D4A9V5
      Related
      ENSRNOP00000021144.4, ENSRNOT00000021144.7
      Conserved Domains (3) summary
      smart00202
      Location:33 → 133
      SR; Scavenger receptor Cys-rich
      pfam00530
      Location:42 → 133
      SRCR; Scavenger receptor cysteine-rich domain
      pfam01186
      Location:535 → 730
      Lysyl_oxidase; Lysyl oxidase

    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_086019.1 Reference GRCr8

      Range
      251345445..251365640 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006231393.5 → XP_006231455.1  lysyl oxidase homolog 4 isoform X1

      Conserved Domains (3) summary
      smart00202
      Location:33 → 133
      SR; Scavenger receptor Cys-rich
      pfam00530
      Location:177 → 287
      SRCR; Scavenger receptor cysteine-rich domain
      pfam01186
      Location:535 → 733
      Lysyl_oxidase; Lysyl oxidase

    2. XM_039080114.2 → XP_038936042.1  lysyl oxidase homolog 4 isoform X2

      Conserved Domains (3) summary
      smart00202
      Location:33 → 133
      SR; Scavenger receptor Cys-rich
      pfam00530
      Location:177 → 287
      SRCR; Scavenger receptor cysteine-rich domain
      pfam01186
      Location:536 → 698
      Lysyl_oxidase; Lysyl oxidase
    Nucleotide Protein Strain
    Heading Accession and Version

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