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    Zfhx3 zinc finger homeobox 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 307829, updated on 2-Nov-2024

    Summary

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    Symbol
    Zfhx3provided by RGD
    Full Name
    zinc finger homeobox 3provided by RGD
    Primary source
    RGD:1560268
    See related
    EnsemblRapid:ENSRNOG00000014452 AllianceGenome:RGD:1560268
    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
    Atbf1; RGD1560268
    Summary
    Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and enzyme binding activity. Involved in regulation of neuron differentiation. Predicted to be located in cytoplasm and nuclear body. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in familial atrial fibrillation; hepatocellular carcinoma; lung non-small cell carcinoma (multiple); prostate cancer; and spinocerebellar ataxia type 4. Orthologous to human ZFHX3 (zinc finger homeobox 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 66.6), Lung (RPKM 34.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Zfhx3 in Genome Data Viewer
    Location:
    19q12
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 19 NC_086037.1 (52789146..53795664)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (36257196..36886104)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (42753983..42925794, complement)

    Chromosome 19 - NC_086037.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134483638 Neighboring gene uncharacterized LOC134483513 Neighboring gene uncharacterized LOC120098516 Neighboring gene uncharacterized LOC134483353 Neighboring gene uncharacterized LOC134483639 Neighboring gene uncharacterized LOC134483640 Neighboring gene uncharacterized LOC103694327 Neighboring gene transfer RNA threonine (anticodon AGU) 21 Neighboring gene uncharacterized LOC108353195 Neighboring gene zinc finger homeobox 3 like Neighboring gene uncharacterized LOC120098527 Neighboring gene uncharacterized LOC120098483

    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 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. Genomic profiles and tumor immune microenvironment of primary lung carcinoma and brain oligo-metastasis. Song Z, et al. Cell Death Dis, 2021 Jan 21. PMID 33479213, Free PMC Article
    2. ZFHX3 Promotes the Proliferation and Tumor Growth of ER-Positive Breast Cancer Cells Likely by Enhancing Stem-Like Features and MYC and TBX3 Transcription. Dong G, et al. Cancers (Basel), 2020 Nov 18. PMID 33217982, Free PMC Article
    3. Homeotic factor ATBF1 induces the cell cycle arrest associated with neuronal differentiation. Jung CG, et al. Development, 2005 Dec. PMID 16251211
    4. [A preliminary functional study of AT motif binding factor 1 in colorectal cancer]. Ji SF, et al. Nan Fang Yi Ke Da Xue Xue Bao, 2016 Jun 20. PMID 27435776
    5. Blood serum alpha fetoprotein enhancer binding protein, a tumor suppressor, decreases in chronic HBV hepatitis patients as hepatocellular cancer appears. Riggins JN, et al. Dis Markers, 2010. PMID 20534899, Free PMC Article

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables enzyme binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription cis-regulatory region binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in circadian regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of myoblast differentiation 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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cell adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of myoblast differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of locomotor rhythm ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of neuron differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of neuron differentiation IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in response to transforming growth factor beta ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    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
    		  
    part_of transcription regulator complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger homeobox protein 3

    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_001427481.2 → NP_001414410.1  zinc finger homeobox protein 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000019
      UniProtKB/TrEMBL
      F1M4Q6
      Related
      ENSRNOP00000098452.1, ENSRNOT00000120840.2

    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_086037.1 Reference GRCr8

      Range
      52789146..53795664
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063278047.1 → XP_063134117.1  zinc finger homeobox protein 3 isoform X1

      UniProtKB/TrEMBL
      F1M4Q6

    2. XM_039098313.2 → XP_038954241.1  zinc finger homeobox protein 3 isoform X1

      UniProtKB/TrEMBL
      F1M4Q6
      Conserved Domains (5) summary
      smart00389
      Location:2156 → 2212
      HOX; Homeodomain
      COG5576
      Location:2604 → 2750
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:1556 → 1580
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:1412 → 1432
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:2256 → 2310
      Homeobox; Homeobox domain

    3. XM_039098314.2 → XP_038954242.1  zinc finger homeobox protein 3 isoform X1

      UniProtKB/TrEMBL
      F1M4Q6
      Conserved Domains (5) summary
      smart00389
      Location:2156 → 2212
      HOX; Homeodomain
      COG5576
      Location:2604 → 2750
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:1556 → 1580
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:1412 → 1432
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:2256 → 2310
      Homeobox; Homeobox domain

    4. XM_063278048.1 → XP_063134118.1  zinc finger homeobox protein 3 isoform X1

      UniProtKB/TrEMBL
      F1M4Q6

    5. XM_039098312.2 → XP_038954240.1  zinc finger homeobox protein 3 isoform X1

      UniProtKB/TrEMBL
      F1M4Q6
      Conserved Domains (5) summary
      smart00389
      Location:2156 → 2212
      HOX; Homeodomain
      COG5576
      Location:2604 → 2750
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:1556 → 1580
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:1412 → 1432
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:2256 → 2310
      Homeobox; Homeobox domain

    6. XM_039098319.2 → XP_038954247.1  zinc finger homeobox protein 3 isoform X2

      Conserved Domains (5) summary
      smart00389
      Location:1243 → 1299
      HOX; Homeodomain
      COG5576
      Location:1691 → 1837
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:643 → 667
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:499 → 519
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:1343 → 1397
      Homeobox; Homeobox domain

    7. XM_039098318.2 → XP_038954246.1  zinc finger homeobox protein 3 isoform X2

      Conserved Domains (5) summary
      smart00389
      Location:1243 → 1299
      HOX; Homeodomain
      COG5576
      Location:1691 → 1837
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:643 → 667
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:499 → 519
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:1343 → 1397
      Homeobox; Homeobox domain

    8. XM_039098311.2 → XP_038954239.1  zinc finger homeobox protein 3 isoform X1

      UniProtKB/TrEMBL
      F1M4Q6
      Conserved Domains (5) summary
      smart00389
      Location:2156 → 2212
      HOX; Homeodomain
      COG5576
      Location:2604 → 2750
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:1556 → 1580
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:1412 → 1432
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:2256 → 2310
      Homeobox; Homeobox domain

    9. XM_039098317.2 → XP_038954245.1  zinc finger homeobox protein 3 isoform X2

      Conserved Domains (5) summary
      smart00389
      Location:1243 → 1299
      HOX; Homeodomain
      COG5576
      Location:1691 → 1837
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:643 → 667
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:499 → 519
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:1343 → 1397
      Homeobox; Homeobox domain

    10. XM_039098316.2 → XP_038954244.1  zinc finger homeobox protein 3 isoform X1

      UniProtKB/TrEMBL
      F1M4Q6
      Conserved Domains (5) summary
      smart00389
      Location:2156 → 2212
      HOX; Homeodomain
      COG5576
      Location:2604 → 2750
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:1556 → 1580
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:1412 → 1432
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:2256 → 2310
      Homeobox; Homeobox domain
    Nucleotide Protein Strain
    Heading Accession and Version

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