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    Rwdd3 RWD domain containing 3 [ Mus musculus (house mouse) ]

    Gene ID: 66568, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Rwdd3provided by MGI
    Official Full Name
    RWD domain containing 3provided by MGI
    Primary source
    MGI:MGI:1920420
    See related
    Ensembl:ENSMUSG00000028133 AllianceGenome:MGI:1920420
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Rsume; X2CR1; 2510027J23Rik; 3110037C01Rik
    Summary
    Acts upstream of or within positive regulation of hypoxia-inducible factor-1alpha signaling pathway. Predicted to be located in cytoplasm and nucleus. Is expressed in cerebral cortex subventricular zone. Orthologous to human RWDD3 (RWD domain containing 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E18 (RPKM 2.2), CNS E14 (RPKM 2.0) and 25 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Rwdd3 in Genome Data Viewer
    Location:
    3 G1; 3 52.94 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (120949046..120965427, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (121155397..121171781, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 6530403H02 gene Neighboring gene STARR-seq mESC enhancer starr_08831 Neighboring gene STARR-seq mESC enhancer starr_08832 Neighboring gene predicted gene, 52615 Neighboring gene STARR-seq mESC enhancer starr_08834 Neighboring gene STARR-seq mESC enhancer starr_08835 Neighboring gene predicted gene, 40133 Neighboring gene STARR-seq mESC enhancer starr_08836 Neighboring gene STARR-positive B cell enhancer ABC_E10209 Neighboring gene STARR-positive B cell enhancer ABC_E6110 Neighboring gene STARR-positive B cell enhancer ABC_E4583 Neighboring gene STARR-seq mESC enhancer starr_08837 Neighboring gene predicted gene 10652 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene predicted gene, 52661 Neighboring gene TLC domain containing 4

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. RSUME, a small RWD-containing protein, enhances SUMO conjugation and stabilizes HIF-1alpha during hypoxia. Carbia-Nagashima A, et al. Cell, 2007 Oct 19. PMID 17956732
    2. RSUME is implicated in HIF-1-induced VEGF-A production in pituitary tumour cells. Shan B, et al. Endocr Relat Cancer, 2012 Feb. PMID 22009797
    3. Single-cell gene profiling defines differential progenitor subclasses in mammalian neurogenesis. Kawaguchi A, et al. Development, 2008 Sep. PMID 18725516
    4. Single-cell transcriptomic analysis of mouse neocortical development. Loo L, et al. Nat Commun, 2019 Jan 11. PMID 30635555, Free PMC Article
    5. A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome. Mural RJ, et al. Science, 2002 May 31. PMID 12040188

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2) 

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC150017, MGC170967, MGC170969

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of NF-kappaB transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of hypoxia-inducible factor-1alpha signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within positive regulation of hypoxia-inducible factor-1alpha signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of hypoxia-inducible factor-1alpha signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of hypoxia-inducible factor-1alpha signaling pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of protein sumoylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of protein sumoylation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    RWD domain-containing protein 3
    Names
    RWD domain-containing sumoylation enhancer

    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_025637.3 → NP_079913.2  RWD domain-containing protein 3 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK134288, BC037515, BY710389, BY744183
      Consensus CDS
      CCDS17799.2
      UniProtKB/TrEMBL
      E9Q1R6
      Related
      ENSMUSP00000102075.2, ENSMUST00000106467.8
      Conserved Domains (2) summary
      pfam05773
      Location:97 → 183
      RWD; RWD domain
      pfam06544
      Location:231 → 270
      DUF1115; Protein of unknown function (DUF1115)

    2. NM_028456.3 → NP_082732.2  RWD domain-containing protein 3 isoform 2

      See identical proteins and their annotated locations for NP_082732.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an in-frame segment in the 5' coding region, compared to variant 1, resulting in an isoform (2) that is shorter than isoform 1.
      Source sequence(s)
      AK134288, BC037515, BY744183
      Consensus CDS
      CCDS17798.1
      UniProtKB/TrEMBL
      A1A544, Q3UYX7
      Related
      ENSMUSP00000102074.4, ENSMUST00000106466.10
      Conserved Domains (2) summary
      pfam05773
      Location:3 → 111
      RWD; RWD domain
      pfam06544
      Location:146 → 258
      DUF1115; Protein of unknown function (DUF1115)

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000069.7 Reference GRCm39 C57BL/6J

      Range
      120949046..120965427 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011240195.4 → XP_011238497.1  RWD domain-containing protein 3 isoform X1

      See identical proteins and their annotated locations for XP_011238497.1

      UniProtKB/TrEMBL
      A1A544, Q3UYX7
      Conserved Domains (2) summary
      pfam05773
      Location:3 → 111
      RWD; RWD domain
      pfam06544
      Location:146 → 258
      DUF1115; Protein of unknown function (DUF1115)

    RNA

    1. XR_004941379.1 RNA Sequence

    2. XR_867227.4 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8VIL2.1 GenPept UniProtKB/Swiss-Prot:Q8VIL2

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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