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    Zgpat zinc finger CCCH-type and G-patch domain containing [ Rattus norvegicus (Norway rat) ]

    Gene ID: 296478, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Zgpatprovided by RGD
    Official Full Name
    zinc finger CCCH-type and G-patch domain containingprovided by RGD
    Primary source
    RGD:1310801
    See related
    EnsemblRapid:ENSRNOG00000014235 AllianceGenome:RGD:1310801
    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
    RGD1310801
    Summary
    Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in negative regulation of epidermal growth factor-activated receptor activity and negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm and plasma membrane. Predicted to be active in nucleus. Orthologous to human ZGPAT (zinc finger CCCH-type and G-patch domain containing). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 138.1), Thymus (RPKM 130.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Zgpat in Genome Data Viewer
    Location:
    3q43
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (188851376..188867914)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (168473836..168490380)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (176865078..176881603)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120101833 Neighboring gene glucocorticoid modulatory element binding protein 2 Neighboring gene regulator of telomere elongation helicase 1 Neighboring gene stathmin 3 Neighboring gene ARF related protein 1 Neighboring gene SLC2A4 regulator Neighboring gene Lck interacting transmembrane adaptor 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 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. ZIP: a novel transcription repressor, represses EGFR oncogene and suppresses breast carcinogenesis. Li R, et al. EMBO J, 2009 Sep 16. PMID 19644445, Free PMC Article
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    3. 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

    Clone Names

    • MGC105627

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables DNA-binding transcription repressor 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 metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables sequence-specific DNA binding ISS
    Inferred from Sequence or Structural Similarity
    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 DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of epidermal growth factor-activated receptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of epidermal growth factor-activated receptor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II 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
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger CCCH-type with G patch domain-containing protein
    Names
    zinc finger, CCCH-type with G patch domain

    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_001009656.2 → NP_001009656.1  zinc finger CCCH-type with G patch domain-containing protein

      See identical proteins and their annotated locations for NP_001009656.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/Swiss-Prot
      Q5PPF5
      UniProtKB/TrEMBL
      A6KM16
      Related
      ENSRNOP00000019084.4, ENSRNOT00000019084.9
      Conserved Domains (4) summary
      cd04508
      Location:216 → 262
      TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
      smart00356
      Location:173 → 194
      ZnF_C3H1; zinc finger
      pfam01585
      Location:309 → 350
      G-patch; G-patch domain
      cl23720
      Location:388 → 503
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

    2. NM_001430360.1 → NP_001417289.1  zinc finger CCCH-type with G patch domain-containing protein

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/Swiss-Prot
      Q5PPF5
      UniProtKB/TrEMBL
      A6KM16

    3. NM_001430361.1 → NP_001417290.1  zinc finger CCCH-type with G patch domain-containing protein

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/Swiss-Prot
      Q5PPF5
      UniProtKB/TrEMBL
      A6KM16

    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
      188851376..188867914
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006235750.4 → XP_006235812.1  zinc finger CCCH-type with G patch domain-containing protein isoform X1

      Conserved Domains (4) summary
      cd04508
      Location:216 → 262
      TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
      smart00356
      Location:173 → 194
      ZnF_C3H1; zinc finger
      pfam01585
      Location:309 → 350
      G-patch; G-patch domain
      cl23720
      Location:388 → 503
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

    2. XM_006235749.3 → XP_006235811.1  zinc finger CCCH-type with G patch domain-containing protein isoform X1

      Conserved Domains (4) summary
      cd04508
      Location:216 → 262
      TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
      smart00356
      Location:173 → 194
      ZnF_C3H1; zinc finger
      pfam01585
      Location:309 → 350
      G-patch; G-patch domain
      cl23720
      Location:388 → 503
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5PPF5.1 GenPept UniProtKB/Swiss-Prot:Q5PPF5

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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