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    Patz1 POZ (BTB) and AT hook containing zinc finger 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 305471, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Patz1provided by RGD
    Official Full Name
    POZ (BTB) and AT hook containing zinc finger 1provided by RGD
    Primary source
    RGD:1308337
    See related
    Ensembl:ENSRNOG00000018709 AllianceGenome:RGD:1308337
    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
    Zfp278; Znf278
    Summary
    Predicted to enable several functions, including DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and ubiquitin protein ligase binding activity. Predicted to be involved in negative regulation of endothelial cell migration and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including T cell differentiation; male gonad development; and spermatogenesis. Predicted to be located in nucleus. Predicted to be active in nucleoplasm. Orthologous to human PATZ1 (POZ/BTB and AT hook containing zinc finger 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Kidney (RPKM 139.8), Thymus (RPKM 94.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Patz1 in Genome Data Viewer
    Location:
    14q21
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (82378226..82396679)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (78154590..78173032)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (83509763..83528898)

    Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene eukaryotic translation initiation factor 4E nuclear import factor 1 Neighboring gene small nuclear ribonucleoprotein polypeptide G, pseudogene 1 Neighboring gene developmentally regulated GTP binding protein 1 Neighboring gene LIM domain kinase 2 Neighboring gene U7 small nuclear RNA Neighboring gene phosphoinositide-3-kinase interacting protein 1

    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. PATZ1 is a target of miR-29b that is induced by Ha-Ras oncogene in rat thyroid cells. Vitiello M, et al. Sci Rep, 2016 Apr 29. PMID 27125250, Free PMC Article
    2. PATZ1 gene has a critical role in the spermatogenesis and testicular tumours. Fedele M, et al. J Pathol, 2008 May. PMID 18241078
    3. A combinatorial code for gene expression generated by transcription factor Bach2 and MAZR (MAZ-related factor) through the BTB/POZ domain. Kobayashi A, et al. Mol Cell Biol, 2000 Mar. PMID 10669750, Free PMC Article
    4. miR-24 suppression of POZ/BTB and AT-hook-containing zinc finger protein 1 (PATZ1) protects endothelial cell from diabetic damage. Cui YX, et al. Biochem Biophys Res Commun, 2016 Nov 25. PMID 27983982
    5. Negative regulation of CD8 expression via Cd8 enhancer-mediated recruitment of the zinc finger protein MAZR. Bilic I, et al. Nat Immunol, 2006 Apr. PMID 16491076, Free PMC Article

    See all (7) 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 activator activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription repressor 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 RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin protein ligase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within T cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within male gonad development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of endothelial cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cytokine production IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of immune system process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within spermatogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in male germ cell nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    POZ-, AT hook-, and zinc finger-containing protein 1
    Names
    zinc finger protein 278

    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_001107231.2 → NP_001100701.1  POZ-, AT hook-, and zinc finger-containing protein 1 isoform 1

      See identical proteins and their annotated locations for NP_001100701.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      EV764152, JAXUCZ010000014
      UniProtKB/TrEMBL
      A6IK96, D3ZX15
      Related
      ENSRNOP00000025378.2, ENSRNOT00000025378.5
      Conserved Domains (6) summary
      COG5048
      Location:357 → 408
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:357 → 377
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:561 → 582
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd18207
      Location:14 → 162
      BTB_POZ_ZBTB19_PATZ1; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in POZ-, AT hook-, and zinc finger-containing protein 1 (PATZ1)
      pfam15909
      Location:382 → 461
      zf-C2H2_8; C2H2-type zinc ribbon
      pfam16637
      Location:492 → 558
      zf-C2H2_assoc3; Putative zinc-finger between two C2H2 zinc-fingers on Patz

    2. NM_001277214.1 → NP_001264143.1  POZ-, AT hook-, and zinc finger-containing protein 1 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains an alternate exon in the coding region, which results in a frameshift, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      CK479676, JAXUCZ010000014
      UniProtKB/TrEMBL
      A0A0G2K420
      Conserved Domains (5) summary
      COG5048
      Location:381 → 451
      COG5048; FOG: Zn-finger [General function prediction only]
      COG5189
      Location:329 → 406
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      sd00017
      Location:357 → 377
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd18207
      Location:14 → 162
      BTB_POZ_ZBTB19_PATZ1; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in POZ-, AT hook-, and zinc finger-containing protein 1 (PATZ1)
      pfam13912
      Location:442 → 467
      zf-C2H2_6; C2H2-type zinc finger

    3. NM_001277215.1 → NP_001264144.1  POZ-, AT hook-, and zinc finger-containing protein 1 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks several exons and includes an alternate 3' terminal exon, compared to variant 1. The encoded isoform (3) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      BC098801, JAXUCZ010000014
      UniProtKB/TrEMBL
      A0A0G2K2T7, Q4G032
      Conserved Domains (6) summary
      smart00225
      Location:42 → 159
      BTB; Broad-Complex, Tramtrack and Bric a brac
      COG5048
      Location:357 → 408
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:357 → 377
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:357 → 377
      zf-C2H2; Zinc finger, C2H2 type
      pfam00651
      Location:30 → 157
      BTB; BTB/POZ domain
      pfam13465
      Location:369 → 394
      zf-H2C2_2; Zinc-finger double domain

    RNA

    1. NR_102353.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) includes an alternate 5' terminal exon, compared to variant 1. This variant is represented as non-coding due to the presence of an upstream ORF that is predicted to interfere with translation of the longest ORF; translation of the upstream ORF renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      DY318319, JAXUCZ010000014

    2. NR_102354.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) lacks several exons and includes alternate 5' and 3' terminal exons, compared to variant 1. This variant is represented as non-coding because the longest open reading frame is in a different frame compared to variant 1, and there is no support for the predicted protein encoded by this ORF.
      Source sequence(s)
      BC098801, DV728999, DY318319

    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_086032.1 Reference GRCr8

      Range
      82378226..82396679
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006251292.5 → XP_006251354.1  POZ-, AT hook-, and zinc finger-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K420
      Related
      ENSRNOP00000072870.2
      Conserved Domains (8) summary
      smart00225
      Location:42 → 159
      BTB; Broad-Complex, Tramtrack and Bric a brac
      COG4049
      Location:600 → 635
      COG4049; Uncharacterized protein, contains archaeal-type C2H2 Zn-finger [General function prediction only]
      COG5048
      Location:381 → 518
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:357 → 377
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00651
      Location:30 → 157
      BTB; BTB/POZ domain
      pfam13465
      Location:369 → 394
      zf-H2C2_2; Zinc-finger double domain
      pfam13912
      Location:442 → 467
      zf-C2H2_6; C2H2-type zinc finger
      pfam16637
      Location:536 → 604
      zf-C2H2_assoc3; Putative zinc-finger between two C2H2 zinc-fingers on Patz

    2. XM_063273186.1 → XP_063129256.1  POZ-, AT hook-, and zinc finger-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A0G2K6M4

    3. XM_039092005.2 → XP_038947933.1  POZ-, AT hook-, and zinc finger-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A0G2K6M4
      Conserved Domains (3) summary
      COG5048
      Location:357 → 408
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:357 → 377
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd18207
      Location:14 → 162
      BTB_POZ_ZBTB19_PATZ1; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in POZ-, AT hook-, and zinc finger-containing protein 1 (PATZ1)
    Nucleotide Protein Strain
    Heading Accession and Version

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