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

Gene ID: 306353, updated on 2-Nov-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
EnsemblRapid: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 positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within Ras protein signal transduction. 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 severe combined immunodeficiency. Orthologous to human RFXANK (regulatory factor X associated ankyrin containing protein). [provided by Alliance of Genome Resources, Nov 2024]
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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See Rfxank in Genome Data Viewer
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
  
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
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
  
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
    Related
    ENSRNOP00000041190.6, ENSRNOT00000041221.6
    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
    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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