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

Gene ID: 296478, updated on 28-Oct-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, Oct 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 ADP-ribosylation factor 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

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