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Hmbox1 homeobox containing 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 305968, updated on 27-Nov-2024

Summary

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Official Symbol
Hmbox1provided by RGD
Official Full Name
homeobox containing 1provided by RGD
Primary source
RGD:1306787
See related
EnsemblRapid:ENSRNOG00000013326 AllianceGenome:RGD:1306787
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
Also known as
RGD1306787
Summary
Predicted to enable double-stranded telomeric DNA binding activity; identical protein binding activity; and sequence-specific double-stranded DNA binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II; telomere maintenance via telomerase; and telomere-telomerase complex assembly. Predicted to be located in several cellular components, including centrosome; chromosome, telomeric region; and nuclear body. Predicted to be active in nucleus. Orthologous to human HMBOX1 (homeobox containing 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Lung (RPKM 150.0), Kidney (RPKM 98.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Hmbox1 in Genome Data Viewer
Location:
15p12
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (43243503..43376011, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (39067805..39200633, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (48194709..48326310, complement)

Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102554677 Neighboring gene microRNA 124-1 Neighboring gene kinesin family member 13B Neighboring gene high mobility group nucleosomal binding domain 4, pseudogene 7 Neighboring gene integrator complex subunit 9 Neighboring gene uncharacterized LOC134482133 Neighboring gene exostosin-like glycosyltransferase 3

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. Role of Hmbox1 in endothelial differentiation of bone-marrow stromal cells by a small molecule. Su L, et al. ACS Chem Biol, 2010 Nov 19. PMID 20822188
  2. HMBOX1, homeobox transcription factor, negatively regulates interferon-γ production in natural killer cells. Wu L, et al. Int Immunopharmacol, 2011 Nov. PMID 21839858
  3. Characterization of a novel human HMBOX1 splicing variant lacking the homeodomain and with attenuated transcription repressor activity. Zhang M, et al. Mol Biol Rep, 2010 Jul. PMID 19757162
  4. HOT1 is a mammalian direct telomere repeat-binding protein contributing to telomerase recruitment. Kappei D, et al. EMBO J, 2013 Jun 12. PMID 23685356, Free PMC Article
  5. DNA-binding specificities of human transcription factors. Jolma A, et al. Cell, 2013 Jan 17. PMID 23332764

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Hmbox1 is a key factor in the differentiation of bone-marrow stromal cells in vascular endothelial cells.
    Title: Role of Hmbox1 in endothelial differentiation of bone-marrow stromal cells by a small molecule.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables double-stranded telomeric DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
  
enables sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables telomeric DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in telomere maintenance via telomerase ISO
Inferred from Sequence Orthology
more info
  
involved_in telomere-telomerase complex assembly ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in centrosome IEA
Inferred from Electronic Annotation
more info
  
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  
located_in chromosome, telomeric region ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear body IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear body ISO
Inferred from Sequence Orthology
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
  

General protein information

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Preferred Names
homeobox-containing protein 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_001427100.2 → NP_001414029.1  homeobox-containing protein 1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000015

  2. NM_001427101.2 → NP_001414030.1  homeobox-containing protein 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000015
    UniProtKB/TrEMBL
    A0A8I6GJY0
    Related
    ENSRNOP00000105983.1, ENSRNOT00000173136.1

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_086033.1 Reference GRCr8

    Range
    43243503..43376011 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039094021.2 → XP_038949949.1  homeobox-containing protein 1 isoform X11

    UniProtKB/TrEMBL
    D3ZER1
    Conserved Domains (2) summary
    cd00086
    Location:268 → 340
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam04814
    Location:25 → 227
    HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus

  2. XM_039094013.2 → XP_038949941.1  homeobox-containing protein 1 isoform X5

    UniProtKB/TrEMBL
    A6K6I6
    Conserved Domains (2) summary
    cd00086
    Location:268 → 340
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam04814
    Location:25 → 227
    HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus

  3. XM_039094010.2 → XP_038949938.1  homeobox-containing protein 1 isoform X3

    UniProtKB/TrEMBL
    A6K6I6
    Conserved Domains (2) summary
    cd00086
    Location:268 → 340
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam04814
    Location:25 → 227
    HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus

  4. XM_039094020.2 → XP_038949948.1  homeobox-containing protein 1 isoform X10

    UniProtKB/TrEMBL
    D3ZER1
    Related
    ENSRNOP00000092747.2, ENSRNOT00000120015.2
    Conserved Domains (2) summary
    cd00086
    Location:268 → 340
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam04814
    Location:25 → 227
    HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus

  5. XM_039094009.2 → XP_038949937.1  homeobox-containing protein 1 isoform X2

    UniProtKB/TrEMBL
    A6K6I6
    Conserved Domains (2) summary
    cd00086
    Location:268 → 340
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam04814
    Location:25 → 227
    HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus

  6. XM_039094018.2 → XP_038949946.1  homeobox-containing protein 1 isoform X8

    UniProtKB/TrEMBL
    A0A8I5Y5F7, D3ZER1
    Conserved Domains (2) summary
    cd00086
    Location:268 → 340
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam04814
    Location:25 → 227
    HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus

  7. XM_039094017.2 → XP_038949945.1  homeobox-containing protein 1 isoform X8

    UniProtKB/TrEMBL
    A0A8I5Y5F7, D3ZER1
    Conserved Domains (2) summary
    cd00086
    Location:268 → 340
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam04814
    Location:25 → 227
    HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus

  8. XM_039094016.2 → XP_038949944.1  homeobox-containing protein 1 isoform X8

    UniProtKB/TrEMBL
    A0A8I5Y5F7, D3ZER1
    Conserved Domains (2) summary
    cd00086
    Location:268 → 340
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam04814
    Location:25 → 227
    HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus

  9. XM_039094008.2 → XP_038949936.1  homeobox-containing protein 1 isoform X1

    UniProtKB/TrEMBL
    A6K6I6
    Related
    ENSRNOP00000110153.1, ENSRNOT00000129024.1
    Conserved Domains (2) summary
    cd00086
    Location:268 → 340
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam04814
    Location:25 → 227
    HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus

  10. XM_063274287.1 → XP_063130357.1  homeobox-containing protein 1 isoform X4

  11. XM_039094019.2 → XP_038949947.1  homeobox-containing protein 1 isoform X9

    UniProtKB/TrEMBL
    D3ZER1
    Conserved Domains (2) summary
    cd00086
    Location:268 → 340
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam04814
    Location:25 → 227
    HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus

  12. XM_039094015.2 → XP_038949943.1  homeobox-containing protein 1 isoform X7

    UniProtKB/TrEMBL
    D3ZER1
    Conserved Domains (2) summary
    cd00086
    Location:268 → 340
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam04814
    Location:25 → 227
    HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus

  13. XM_039094014.2 → XP_038949942.1  homeobox-containing protein 1 isoform X6

    UniProtKB/TrEMBL
    A0A8I6A3H7, A6K6I7, D3ZER1
    Related
    ENSRNOP00000029528.5, ENSRNOT00000038336.8
    Conserved Domains (2) summary
    cd00086
    Location:268 → 340
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam04814
    Location:25 → 227
    HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus
Nucleotide Protein Strain
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