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    Ankrd42 ankyrin repeat domain 42 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 293117, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ankrd42provided by RGD
    Official Full Name
    ankyrin repeat domain 42provided by RGD
    Primary source
    RGD:1310789
    See related
    EnsemblRapid:ENSRNOG00000009664 AllianceGenome:RGD:1310789
    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
    RGD1310789
    Summary
    Predicted to enable NF-kappaB binding activity. Predicted to act upstream of or within positive regulation of NF-kappaB transcription factor activity and positive regulation of cytokine production involved in inflammatory response. Predicted to be active in nucleus. Orthologous to human ANKRD42 (ankyrin repeat domain 42). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 122.2), Lung (RPKM 67.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ankrd42 in Genome Data Viewer
    Location:
    1q32
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (156060516..156103543, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (146648080..146691086, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (157419117..157461588, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene protein FAM98A-like Neighboring gene coiled-coil domain containing 90B Neighboring gene PCF11 cleavage and polyadenylation factor subunit Neighboring gene pantothenate kinase 1, pseudogene 1

    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. IkappaBeta, a nuclear IkappaB protein, positively regulates the NF-kappaB-mediated expression of proinflammatory cytokines. Yamauchi S, et al. Proc Natl Acad Sci U S A, 2010 Jun 29. PMID 20547855, Free PMC Article
    2. Gene and alternative splicing annotation with AIR. Florea L, et al. Genome Res, 2005 Jan. PMID 15632090, 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 NF-kappaB binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables NF-kappaB binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables cyclin-dependent protein serine/threonine kinase inhibitor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of cytokine production involved in inflammatory response ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    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
    ankyrin repeat domain-containing protein 42

    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_001135013.1 → NP_001128485.1  ankyrin repeat domain-containing protein 42

      See identical proteins and their annotated locations for NP_001128485.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A6I660
      Related
      ENSRNOP00000062031.3, ENSRNOT00000068402.4
      Conserved Domains (5) summary
      PHA03095
      Location:22 → 235
      PHA03095; ankyrin-like protein; Provisional
      PRK03918
      Location:337 → 510
      PRK03918; DNA double-strand break repair ATPase Rad50
      sd00045
      Location:64 → 95
      ANK; ANK repeat [structural motif]
      pfam12796
      Location:69 → 161
      Ank_2; Ankyrin repeats (3 copies)
      cl39094
      Location:132 → 355
      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_086019.1 Reference GRCr8

      Range
      156060516..156103543 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039105925.2 → XP_038961853.1  ankyrin repeat domain-containing protein 42 isoform X5

      Conserved Domains (3) summary
      PHA02874
      Location:66 → 303
      PHA02874; ankyrin repeat protein; Provisional
      sd00045
      Location:126 → 157
      ANK; ANK repeat [structural motif]
      pfam12796
      Location:25 → 157
      Ank_2; Ankyrin repeats (3 copies)

    2. XM_063284974.1 → XP_063141044.1  ankyrin repeat domain-containing protein 42 isoform X3

    3. XM_017588946.3 → XP_017444435.1  ankyrin repeat domain-containing protein 42 isoform X2

    4. XM_017588945.3 → XP_017444434.1  ankyrin repeat domain-containing protein 42 isoform X1

      UniProtKB/TrEMBL
      D3ZA25

    5. XM_039105929.2 → XP_038961857.1  ankyrin repeat domain-containing protein 42 isoform X6

      Conserved Domains (3) summary
      PHA02874
      Location:37 → 274
      PHA02874; ankyrin repeat protein; Provisional
      sd00045
      Location:97 → 128
      ANK; ANK repeat [structural motif]
      pfam13637
      Location:69 → 118
      Ank_4; Ankyrin repeats (many copies)

    6. XM_039105930.2 → XP_038961858.1  ankyrin repeat domain-containing protein 42 isoform X6

      Conserved Domains (3) summary
      PHA02874
      Location:37 → 274
      PHA02874; ankyrin repeat protein; Provisional
      sd00045
      Location:97 → 128
      ANK; ANK repeat [structural motif]
      pfam13637
      Location:69 → 118
      Ank_4; Ankyrin repeats (many copies)

    7. XM_063284984.1 → XP_063141054.1  ankyrin repeat domain-containing protein 42 isoform X7

    8. XM_017588947.3 → XP_017444436.1  ankyrin repeat domain-containing protein 42 isoform X4

    Nucleotide Protein Strain
    Heading Accession and Version

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