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    Rfxank regulatory factor X-associated ankyrin-containing protein [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306353, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Rfxankprovided by RGD
    Official Full Name
    regulatory factor X-associated ankyrin-containing proteinprovided by RGD
    Primary source
    RGD:1311390
    See related
    Ensembl:ENSRNOG00000033318 AllianceGenome:RGD:1311390
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable histone deacetylase binding activity. Predicted to contribute to DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within Ras protein signal transduction and positive regulation of transcription by RNA polymerase II. Predicted to be located in cytosol; intercellular bridge; and nucleoplasm. Predicted to be part of RNA polymerase II transcription regulator complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in MHC class II deficiency and severe combined immunodeficiency. Orthologous to human RFXANK (regulatory factor X associated ankyrin containing protein). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 104.9), Kidney (RPKM 96.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    16p14
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (19314307..19322827)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (19280857..19288886)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (21029449..21037080)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene solute carrier family 25, member 42 Neighboring gene transmembrane protein 161A Neighboring gene myocyte enhancer factor 2B Neighboring gene BLOC-1 related complex subunit 8 Neighboring gene nuclear receptor 2C2-associated protein Neighboring gene small nucleolar RNA SNORA17 Neighboring gene neurocan

    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. Novel mutations in the RFXANK gene: RFX complex containing in-vitro-generated RFXANK mutant binds the promoter without transactivating MHC II. Wiszniewski W, et al. Immunogenetics, 2003 Feb. PMID 12618906
    2. The ankyrin repeat-containing adaptor protein Tvl-1 is a novel substrate and regulator of Raf-1. Lin JH, et al. J Biol Chem, 1999 May 21. PMID 10329666
    3. A gene encoding a novel RFX-associated transactivator is mutated in the majority of MHC class II deficiency patients. Masternak K, et al. Nat Genet, 1998 Nov. PMID 9806546
    4. Class II histone deacetylases confer signal responsiveness to the ankyrin-repeat proteins ANKRA2 and RFXANK. McKinsey TA, et al. Mol Biol Cell, 2006 Jan. PMID 16236793, Free PMC Article
    5. 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

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    contributes_to DNA-binding transcription activator activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to RNA polymerase II transcription regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables histone deacetylase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within Ras protein signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of RNA polymerase II transcription regulator complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intercellular bridge IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intercellular bridge ISO
    Inferred from Sequence Orthology
    more info
    		  
    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
    		  

    General protein information

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    Preferred Names
    DNA-binding protein RFXANK

    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_001013136.1 → NP_001013154.1  DNA-binding protein RFXANK

      See identical proteins and their annotated locations for NP_001013154.1

      Status: PROVISIONAL

      Source sequence(s)
      BC087111
      UniProtKB/TrEMBL
      A0A8J8YI30, E9PSU9, Q5PQM6
      Conserved Domains (3) summary
      COG0666
      Location:89 → 271
      ANKYR; Ankyrin repeat [Signal transduction mechanisms]
      sd00045
      Location:147 → 178
      ANK; ANK repeat [structural motif]
      pfam12796
      Location:152 → 242
      Ank_2; Ankyrin repeats (3 copies)

    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_086034.1 Reference GRCr8

      Range
      19314307..19322827
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039094487.2 → XP_038950415.1  DNA-binding protein RFXANK isoform X1

      UniProtKB/TrEMBL
      A0A8J8YI30, E9PSU9, Q5PQM6
      Conserved Domains (3) summary
      COG0666
      Location:89 → 271
      ANKYR; Ankyrin repeat [Signal transduction mechanisms]
      sd00045
      Location:147 → 178
      ANK; ANK repeat [structural motif]
      pfam12796
      Location:152 → 242
      Ank_2; Ankyrin repeats (3 copies)

    2. XM_063275377.1 → XP_063131447.1  DNA-binding protein RFXANK isoform X3

    3. XM_006252899.5 → XP_006252961.1  DNA-binding protein RFXANK isoform X1

      See identical proteins and their annotated locations for XP_006252961.1

      UniProtKB/TrEMBL
      A0A8J8YI30, E9PSU9, Q5PQM6
      Conserved Domains (3) summary
      COG0666
      Location:89 → 271
      ANKYR; Ankyrin repeat [Signal transduction mechanisms]
      sd00045
      Location:147 → 178
      ANK; ANK repeat [structural motif]
      pfam12796
      Location:152 → 242
      Ank_2; Ankyrin repeats (3 copies)

    4. XM_039094488.2 → XP_038950416.1  DNA-binding protein RFXANK isoform X2

      UniProtKB/TrEMBL
      A0A8J8YI30
      Conserved Domains (2) summary
      sd00045
      Location:125 → 156
      ANK; ANK repeat [structural motif]
      pfam12796
      Location:130 → 220
      Ank_2; Ankyrin repeats (3 copies)

    5. XM_039094489.2 → XP_038950417.1  DNA-binding protein RFXANK isoform X4

      UniProtKB/TrEMBL
      A0A8J8YI30
      Conserved Domains (2) summary
      sd00045
      Location:100 → 131
      ANK; ANK repeat [structural motif]
      pfam12796
      Location:105 → 195
      Ank_2; Ankyrin repeats (3 copies)

    6. XM_006252900.5 → XP_006252962.1  DNA-binding protein RFXANK isoform X3

      UniProtKB/TrEMBL
      A0A8J8YI30
      Related
      ENSRNOP00000041190.5
      Conserved Domains (4) summary
      cd00204
      Location:117 → 237
      ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
      pfam12796
      Location:127 → 216
      Ank_2; Ankyrin repeats (3 copies)
      pfam13637
      Location:93 → 143
      Ank_4; Ankyrin repeats (many copies)
      sd00045
      Location:122 → 153
      ANK; ANK repeat [structural motif]
    Nucleotide Protein Strain
    Heading Accession and Version

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