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

Gene ID: 293117, updated on 18-Sep-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 located in nucleus. Orthologous to human ANKRD42 (ankyrin repeat domain 42). [provided by Alliance of Genome Resources, Apr 2022]
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 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
  
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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