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    Zgpat zinc finger, CCCH-type with G patch domain [ Mus musculus (house mouse) ]

    Gene ID: 229007, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Zgpatprovided by MGI
    Official Full Name
    zinc finger, CCCH-type with G patch domainprovided by MGI
    Primary source
    MGI:MGI:2449939
    See related
    Ensembl:ENSMUSG00000027582 AllianceGenome:MGI:2449939
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    1500006I01Rik
    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. Is expressed in central nervous system; early conceptus; gut epithelium; peripheral nervous system ganglion; and respiratory system. Orthologous to human ZGPAT (zinc finger CCCH-type and G-patch domain containing). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E18 (RPKM 31.8), CNS E14 (RPKM 31.1) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Zgpat in Genome Data Viewer
    Location:
    2 H4; 2 103.63 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (181006724..181022586)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (181364931..181380793)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E10172 Neighboring gene STARR-seq mESC enhancer starr_06749 Neighboring gene stathmin-like 3 Neighboring gene STARR-seq mESC enhancer starr_06750 Neighboring gene STARR-seq mESC enhancer starr_06751 Neighboring gene regulator of telomere elongation helicase 1 Neighboring gene STARR-positive B cell enhancer ABC_E4532 Neighboring gene ARF related protein 1 Neighboring gene STARR-positive B cell enhancer ABC_E11178 Neighboring gene zinc finger and BTB domain containing 46 Neighboring gene Slc2a4 regulator, pseudogene 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: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Resolution of cell fate decisions revealed by single-cell gene expression analysis from zygote to blastocyst. Guo G, et al. Dev Cell, 2010 Apr 20. PMID 20412781
    2. ATG5 is required for B cell polarization and presentation of particulate antigens. Arbogast F, et al. Autophagy, 2019 Feb. PMID 30196744, Free PMC Article
    3. High-throughput discovery of novel developmental phenotypes. Dickinson ME, et al. Nature, 2016 Sep 22. PMID 27626380, Free PMC Article
    4. Mouse brain organization revealed through direct genome-scale TF expression analysis. Gray PA, et al. Science, 2004 Dec 24. PMID 15618518
    5. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (3) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Potential readthrough

    Included gene: Lime1

    Homology

    Clone Names

    • MGC25688, MGC38468

    Gene Ontology Provided by MGI

    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 IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    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

    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_001048148.1 → NP_001041613.1  zinc finger CCCH-type with G patch domain-containing protein

      See identical proteins and their annotated locations for NP_001041613.1

      Status: VALIDATED

      Source sequence(s)
      AK041491, AK159801, BY467113
      Consensus CDS
      CCDS17210.1
      UniProtKB/Swiss-Prot
      A2AU20, A2AU21, Q3TW85, Q69Z90, Q8BWW2, Q8VDM1
      Related
      ENSMUSP00000104435.3, ENSMUST00000108807.9
      Conserved Domains (4) summary
      cd04508
      Location:220 → 266
      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:177 → 198
      ZnF_C3H1; zinc finger
      pfam01585
      Location:313 → 354
      G-patch; G-patch domain
      cl23720
      Location:392 → 507
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

    2. NM_144894.3 → NP_659143.1  zinc finger CCCH-type with G patch domain-containing protein

      See identical proteins and their annotated locations for NP_659143.1

      Status: VALIDATED

      Source sequence(s)
      AK041491, BY287149, BY467113
      Consensus CDS
      CCDS17210.1
      UniProtKB/Swiss-Prot
      A2AU20, A2AU21, Q3TW85, Q69Z90, Q8BWW2, Q8VDM1
      Related
      ENSMUSP00000029105.6, ENSMUST00000029105.12
      Conserved Domains (4) summary
      cd04508
      Location:220 → 266
      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:177 → 198
      ZnF_C3H1; zinc finger
      pfam01585
      Location:313 → 354
      G-patch; G-patch domain
      cl23720
      Location:392 → 507
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000068.8 Reference GRCm39 C57BL/6J

      Range
      181006724..181022586
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8VDM1.1 GenPept UniProtKB/Swiss-Prot:Q8VDM1

    Gene LinkOut

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

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