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    Nfxl1 nuclear transcription factor, X-box binding-like 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 289595, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Nfxl1provided by RGD
    Official Full Name
    nuclear transcription factor, X-box binding-like 1provided by RGD
    Primary source
    RGD:1359201
    See related
    EnsemblRapid:ENSRNOG00000058588 AllianceGenome:RGD:1359201
    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
    RGD1359201
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of DNA-templated transcription. Predicted to be located in membrane. Predicted to be active in nucleus. Orthologous to human NFXL1 (nuclear transcription factor, X-box binding like 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 89.1), Thymus (RPKM 68.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Nfxl1 in Genome Data Viewer
    Location:
    14p11
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (35980058..36021478)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (35626086..35667505)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (38192462..38233852)

    Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene NIPA-like domain containing 1 Neighboring gene cyclic nucleotide gated channel subunit alpha 1 Neighboring gene corin, serine peptidase Neighboring gene acidic leucine-rich nuclear phosphoprotein 32 family member A-like Neighboring gene synaptonemal complex central element protein 2-like

    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. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888
    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

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    NF-X1-type zinc finger protein NFXL1

    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_001170438.4 → NP_001163909.1  NF-X1-type zinc finger protein NFXL1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000014
      UniProtKB/TrEMBL
      F1LNF3
      Related
      ENSRNOP00000074217.3, ENSRNOT00000077080.3
      Conserved Domains (2) summary
      cd06008
      Location:422 → 470
      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 ...
      cd16697
      Location:166 → 228
      RING-CH-C4HC3_NFXL1; RING-CH finger, H2 subclass (C4HC3-type), found in nuclear transcription factor, X-box binding-like 1 (NFXL1) and similar proteins

    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_086032.1 Reference GRCr8

      Range
      35980058..36021478
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063272918.1 → XP_063128988.1  NF-X1-type zinc finger protein NFXL1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2KAF4, F1LNF3
      Related
      ENSRNOP00000075378.2, ENSRNOT00000090242.3

    2. XM_063272919.1 → XP_063128989.1  NF-X1-type zinc finger protein NFXL1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2KAF4, F1LNF3

    3. XM_039091704.2 → XP_038947632.1  NF-X1-type zinc finger protein NFXL1 isoform X2

      UniProtKB/TrEMBL
      F1LNF3
      Conserved Domains (2) summary
      cd06008
      Location:422 → 470
      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 ...
      cd16697
      Location:166 → 228
      RING-CH-C4HC3_NFXL1; RING-CH finger, H2 subclass (C4HC3-type), found in nuclear transcription factor, X-box binding-like 1 (NFXL1) and similar proteins

    4. XM_039091705.2 → XP_038947633.1  NF-X1-type zinc finger protein NFXL1 isoform X3

      Conserved Domains (2) summary
      cd06008
      Location:230 → 278
      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 ...
      cl17238
      Location:1 → 36
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    Nucleotide Protein Strain
    Heading Accession and Version

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