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    Znfx1 zinc finger, NFX1-type containing 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 296384, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Znfx1provided by RGD
    Official Full Name
    zinc finger, NFX1-type containing 1provided by RGD
    Primary source
    RGD:1306344
    See related
    EnsemblRapid:ENSRNOG00000008194 AllianceGenome:RGD:1306344
    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
    Ab1-133; RGD1306344
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in several processes, including defense response to other organism; negative regulation of viral genome replication; and regulatory ncRNA-mediated heterochromatin formation. Predicted to be part of nuclear RNA-directed RNA polymerase complex. Predicted to be active in cytoplasmic stress granule and mitochondrial outer membrane. Human ortholog(s) of this gene implicated in primary immunodeficiency disease. Orthologous to human ZNFX1 (zinc finger NFX1-type containing 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Spleen (RPKM 122.9), Lung (RPKM 104.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Znfx1 in Genome Data Viewer
    Location:
    3q42
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (176183111..176210812, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (155764073..155791777, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (163787101..163847671, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108350624 Neighboring gene DEAD-box helicase 27 Neighboring gene uncharacterized LOC100911177 Neighboring gene small nucleolar RNA, C/D box 12C Neighboring gene small nucleolar RNA, C/D box 12

    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. Knockdown of Long Non-Coding RNA-ZFAS1 Protects Cardiomyocytes Against Acute Myocardial Infarction Via Anti-Apoptosis by Regulating miR-150/CRP. Wu T, et al. J Cell Biochem, 2017 Oct. PMID 28295592
    2. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    3. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
    4. 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 RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in activation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in defense response to bacterium ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in defense response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of viral genome replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulatory ncRNA-mediated heterochromatin formation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasmic stress granule ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in mitochondrial outer membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of nuclear RNA-directed RNA polymerase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    NFX1-type zinc finger-containing protein 1

    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_001389271.1 → NP_001376200.1  NFX1-type zinc finger-containing protein 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      F1LMA9, Q7TP99
      Related
      ENSRNOP00000052000.3, ENSRNOT00000055127.6
      Conserved Domains (6) summary
      cd06008
      Location:1453 → 1497
      NF-X1-zinc-finger; Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger ...
      PRK03918
      Location:1597 → 1755
      PRK03918; DNA double-strand break repair ATPase Rad50
      cd18808
      Location:1068 → 1244
      SF1_C_Upf1; C-terminal helicase domain of Upf1-like family helicases
      cd17936
      Location:971 → 1066
      EEXXEc_NFX1; EEXXE-box helicase domain of NFX1
      pfam13086
      Location:897 → 1031
      AAA_11; AAA domain
      pfam15042
      Location:1476 → 1553
      LELP1; Late cornified envelope-like proline-rich protein 1

    2. NM_001430240.1 → NP_001417169.1  NFX1-type zinc finger-containing protein 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      F1LMA9

    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
      176183111..176210812 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006235643.5 → XP_006235705.1  NFX1-type zinc finger-containing protein 1 isoform X1

      Related
      ENSRNOP00000068109.2, ENSRNOT00000076833.4
      Conserved Domains (6) summary
      cd06008
      Location:1453 → 1497
      NF-X1-zinc-finger; Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger ...
      PRK03918
      Location:1597 → 1755
      PRK03918; DNA double-strand break repair ATPase Rad50
      cd18808
      Location:1068 → 1244
      SF1_C_Upf1; C-terminal helicase domain of Upf1-like family helicases
      cd17936
      Location:971 → 1066
      EEXXEc_NFX1; EEXXE-box helicase domain of NFX1
      pfam13086
      Location:897 → 1031
      AAA_11; AAA domain
      pfam15042
      Location:1476 → 1553
      LELP1; Late cornified envelope-like proline-rich protein 1

    2. XM_006235642.5 → XP_006235704.1  NFX1-type zinc finger-containing protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006235704.1

      UniProtKB/TrEMBL
      F1LMA9, Q7TP99
      Conserved Domains (6) summary
      cd06008
      Location:1453 → 1497
      NF-X1-zinc-finger; Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger ...
      PRK03918
      Location:1597 → 1755
      PRK03918; DNA double-strand break repair ATPase Rad50
      cd18808
      Location:1068 → 1244
      SF1_C_Upf1; C-terminal helicase domain of Upf1-like family helicases
      cd17936
      Location:971 → 1066
      EEXXEc_NFX1; EEXXE-box helicase domain of NFX1
      pfam13086
      Location:897 → 1031
      AAA_11; AAA domain
      pfam15042
      Location:1476 → 1553
      LELP1; Late cornified envelope-like proline-rich protein 1

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001047860.1: Suppressed sequence

      Description
      NM_001047860.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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