U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Loxhd1 lipoxygenase homology PLAT domains 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 291427, updated on 9-Dec-2024

    Summary

    Official Symbol
    Loxhd1provided by RGD
    Official Full Name
    lipoxygenase homology PLAT domains 1provided by RGD
    Primary source
    RGD:1304815
    See related
    EnsemblRapid:ENSRNOG00000017410 AllianceGenome:RGD:1304815
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to be involved in sensory perception of sound. Predicted to be active in stereocilium. Human ortholog(s) of this gene implicated in Fuchs' endothelial dystrophy; autosomal recessive nonsyndromic deafness 77; and orofacial cleft. Orthologous to human LOXHD1 (lipoxygenase homology PLAT domains 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 1.5), Testes (RPKM 0.6) and 2 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Loxhd1 in Genome Data Viewer
    Location:
    18q12.3
    Exon count:
    41
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (73093142..73245784)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (70817962..70970606)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (73645365..73812271)

    Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene katanin catalytic subunit A1 like 2 Neighboring gene protein inhibitor of activated STAT, 2 Neighboring gene uncharacterized LOC102552068 Neighboring gene ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 5 Neighboring gene uncharacterized LOC102551787 Neighboring gene uncharacterized protein DDB_G0292186-like Neighboring gene arkadia C-terminal like ring finger ubiquitin ligase 2C Neighboring gene uncharacterized LOC108348739

    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

    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
     
    involved_in sensory perception of sound IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within sensory perception of sound ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in sensory perception of sound ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    is_active_in stereocilium IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in stereocilium ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    lipoxygenase homology domain-containing protein 1
    Names
    lipoxygenase homology domains 1

    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_001106132.4NP_001099602.4  lipoxygenase homology domain-containing protein 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000018
      UniProtKB/TrEMBL
      A0A8I6ANZ5, D4A3A1
      Related
      ENSRNOP00000023487.8, ENSRNOT00000023487.9
      Conserved Domains (2) summary
      cd01756
      Location:10261146
      PLAT_repeat; PLAT/LH2 domain repeats of family of proteins with unknown function. In general, PLAT/LH2 consists of an eight stranded beta-barrel and it's proposed function is to mediate interaction with lipids or membrane bound proteins.
      cl00011
      Location:816896
      PLAT; PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology 2) domain. It consists of an eight stranded beta-barrel. The domain can be found in various domain architectures, in case of lipoxygenases, alpha toxin, lipases and ...
    2. NM_001414400.1NP_001401329.1  lipoxygenase homology domain-containing protein 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000018
      UniProtKB/TrEMBL
      A0A8I6ANZ5
      Related
      ENSRNOP00000111676.1, ENSRNOT00000143083.1

    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_086036.1 Reference GRCr8

      Range
      73093142..73245784
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)