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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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