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    R3hcc1 R3H domain and coiled-coil containing 1 [ Mus musculus (house mouse) ]

    Gene ID: 71843, updated on 21-Apr-2024

    Summary

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    Official Symbol
    R3hcc1provided by MGI
    Official Full Name
    R3H domain and coiled-coil containing 1provided by MGI
    Primary source
    MGI:MGI:1919093
    See related
    Ensembl:ENSMUSG00000034194 AllianceGenome:MGI:1919093
    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
    1700020M16Rik
    Summary
    Predicted to enable nucleic acid binding activity. Orthologous to human R3HCC1 (R3H domain and coiled-coil containing 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 28.9), testis adult (RPKM 28.3) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    14 D2; 14 36.08 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (69934753..69952258, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (69697304..69714809, complement)

    Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene ectonucleoside triphosphate diphosphohydrolase 4B Neighboring gene predicted gene 27177 Neighboring gene STARR-positive B cell enhancer mm9_chr14:69994605-69994905 Neighboring gene lysyl oxidase-like 2 Neighboring gene STARR-positive B cell enhancer mm9_chr14:70029225-70029526 Neighboring gene microRNA 6950 Neighboring gene STARR-positive B cell enhancer ABC_E4117 Neighboring gene RIKEN cDNA 4930480K23 gene Neighboring gene STARR-positive B cell enhancer ABC_E1900 Neighboring gene charged multivesicular body protein 7 Neighboring gene heat shock protein 1 (chaperonin) pseudogene Neighboring gene PR domain containing 4 pseudogene

    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
    • 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. Global mapping of translation initiation sites in mammalian cells at single-nucleotide resolution. Lee S, et al. Proc Natl Acad Sci U S A, 2012 Sep 11. PMID 22927429, Free PMC Article
    2. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808
    3. BGEM: an in situ hybridization database of gene expression in the embryonic and adult mouse nervous system. Magdaleno S, et al. PLoS Biol, 2006 Apr. PMID 16602821, Free PMC Article
    4. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    5. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Ribosome profiling indicates that this gene can use a non-AUG (CUG) start codon in both human HEK293 and mouse embryonic fibroblast cells.
      Title: Global mapping of translation initiation sites in mammalian cells at single-nucleotide resolution.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (1) 
    • Endonuclease-mediated (2) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    R3H and coiled-coil domain-containing protein 1

    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_001146012.2 → NP_001139484.2  R3H and coiled-coil domain-containing protein 1 isoform b

      See identical proteins and their annotated locations for NP_001139484.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains an alternate 5' terminal exon, and it thus differs in the 5' UTR and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Both variants 2 and 3 encode isoform b.
      Source sequence(s)
      AC160639, AK032854, BQ747890
      Consensus CDS
      CCDS49533.2
      UniProtKB/Swiss-Prot
      Q8BSI6
      UniProtKB/TrEMBL
      E9PUE1
      Related
      ENSMUSP00000113450.3, ENSMUST00000118374.8
      Conserved Domains (2) summary
      cd02638
      Location:19 → 79
      R3H_unknown_1; R3H domain of a group of eukaryotic proteins with unknown function. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in ...
      cl17169
      Location:365 → 429
      RRM_SF; RNA recognition motif (RRM) superfamily

    2. NM_001301651.1 → NP_001288580.1  R3H and coiled-coil domain-containing protein 1 isoform a precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (a).
      Source sequence(s)
      AC160639, AK006177, BQ747890
      UniProtKB/TrEMBL
      E9PUE1
      Conserved Domains (2) summary
      cd02638
      Location:33 → 93
      R3H_unknown_1; R3H domain of a group of eukaryotic proteins with unknown function. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in ...
      cl17169
      Location:379 → 443
      RRM_SF; RNA recognition motif (RRM) superfamily

    3. NM_001301652.1 → NP_001288581.1  R3H and coiled-coil domain-containing protein 1 isoform b

      See identical proteins and their annotated locations for NP_001288581.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) contains an alternate 5' terminal exon, and it thus differs in the 5' UTR and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Both variants 2 and 3 encode isoform b.
      Source sequence(s)
      BC059860, BQ747890
      Consensus CDS
      CCDS49533.2
      UniProtKB/Swiss-Prot
      Q8BSI6
      UniProtKB/TrEMBL
      E9PUE1
      Related
      ENSMUSP00000113898.3, ENSMUST00000121142.4
      Conserved Domains (2) summary
      cd02638
      Location:19 → 79
      R3H_unknown_1; R3H domain of a group of eukaryotic proteins with unknown function. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in ...
      cl17169
      Location:365 → 429
      RRM_SF; RNA recognition motif (RRM) superfamily

    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_000080.7 Reference GRCm39 C57BL/6J

      Range
      69934753..69952258 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BSI6.3 GenPept UniProtKB/Swiss-Prot:Q8BSI6

    Gene LinkOut

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

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