U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    Hoxd1 homeo box D1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 288151, updated on 9-Dec-2024

    Summary

    Official Symbol
    Hoxd1provided by RGD
    Official Full Name
    homeo box D1provided by RGD
    Primary source
    RGD:1309179
    See related
    EnsemblRapid:ENSRNOG00000001572 AllianceGenome:RGD:1309179
    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 DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within embryonic skeletal system development; neuron differentiation; and sensory perception of pain. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to human HOXD1 (homeobox D1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Hoxd1 in Genome Data Viewer
    Location:
    3q23
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (80073041..80075180)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (59665629..59667769)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (61685619..61687758)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene homeo box D3 Neighboring gene uncharacterized LOC120101574 Neighboring gene uncharacterized LOC134486290 Neighboring gene metaxin 2

    Genomic regions, transcripts, and products

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within embryonic skeletal system development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within sensory perception of pain ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    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_001105884.1NP_001099354.1  homeobox protein Hox-D1

      See identical proteins and their annotated locations for NP_001099354.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473949
      UniProtKB/TrEMBL
      A6HME0, D4ACE4
      Related
      ENSRNOP00000002140.4, ENSRNOT00000002140.6
      Conserved Domains (2) summary
      COG5576
      Location:208325
      COG5576; Homeodomain-containing transcription factor [Transcription]
      pfam00046
      Location:233285
      Homeobox; Homeobox domain

    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_086021.1 Reference GRCr8

      Range
      80073041..80075180
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)