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    Zfhx4 zinc finger homeobox 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 310250, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Zfhx4provided by RGD
    Official Full Name
    zinc finger homeobox 4provided by RGD
    Primary source
    RGD:1563022
    See related
    EnsemblRapid:ENSRNOG00000008765 AllianceGenome:RGD:1563022
    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
    Also known as
    RGD1563022
    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 be active in nucleus. Orthologous to human ZFHX4 (zinc finger homeobox 4). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Muscle (RPKM 41.3), Lung (RPKM 34.1) and 6 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Zfhx4 in Genome Data Viewer
    Location:
    2q23
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (98131996..98321070, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (96224763..96408245, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (98423565..98610368, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene phosphoglycerate kinase 1, pseudogene 3 Neighboring gene peroxisomal biogenesis factor 2 Neighboring gene inosine monophosphate dehydrogenase 1, pseudogene 1 Neighboring gene uncharacterized LOC134485886 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 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. ZFHX4 interacts with the NuRD core member CHD4 and regulates the glioblastoma tumor-initiating cell state. Chudnovsky Y, et al. Cell Rep, 2014 Jan 30. PMID 24440720, Free PMC Article
    2. 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 DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    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
    zinc finger homeobox protein 4
    Names
    zinc finger homeodomain 4

    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_001191702.1 → NP_001178631.1  zinc finger homeobox protein 4

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/TrEMBL
      D4A3U5
      Related
      ENSRNOP00000011641.5, ENSRNOT00000011641.7
      Conserved Domains (6) summary
      smart00389
      Location:2109 → 2164
      HOX; Homeodomain
      COG5576
      Location:2080 → 2219
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:1522 → 1546
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:1378 → 1398
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:2208 → 2261
      Homeobox; Homeobox domain
      pfam16278
      Location:1350 → 1394
      zf-C2HE; C2HE / C2H2 / C2HC zinc-binding finger

    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_086020.1 Reference GRCr8

      Range
      98131996..98321070 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063281759.1 → XP_063137829.1  zinc finger homeobox protein 4 isoform X2

    2. XM_063281757.1 → XP_063137827.1  zinc finger homeobox protein 4 isoform X1

      UniProtKB/TrEMBL
      D4A3U5

    3. XM_006232162.5 → XP_006232224.1  zinc finger homeobox protein 4 isoform X1

      See identical proteins and their annotated locations for XP_006232224.1

      UniProtKB/TrEMBL
      D4A3U5
      Conserved Domains (7) summary
      smart00389
      Location:2135 → 2190
      HOX; Homeodomain
      COG5189
      Location:1489 → 1616
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      COG5576
      Location:2544 → 2666
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:1548 → 1572
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:1404 → 1424
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:2234 → 2288
      Homeobox; Homeobox domain
      NF033838
      Location:2398 → 2476
      PspC_subgroup_1; pneumococcal surface protein PspC, choline-binding form

    4. XM_063281758.1 → XP_063137828.1  zinc finger homeobox protein 4 isoform X2

    5. XM_006232164.5 → XP_006232226.1  zinc finger homeobox protein 4 isoform X1

      See identical proteins and their annotated locations for XP_006232226.1

      UniProtKB/TrEMBL
      D4A3U5
      Related
      ENSRNOP00000100150.1, ENSRNOT00000148397.1
      Conserved Domains (7) summary
      smart00389
      Location:2135 → 2190
      HOX; Homeodomain
      COG5189
      Location:1489 → 1616
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      COG5576
      Location:2544 → 2666
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:1548 → 1572
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:1404 → 1424
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:2234 → 2288
      Homeobox; Homeobox domain
      NF033838
      Location:2398 → 2476
      PspC_subgroup_1; pneumococcal surface protein PspC, choline-binding form
    Nucleotide Protein Strain
    Heading Accession and Version

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