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    1700028K03Rik RIKEN cDNA 1700028K03 gene [ Mus musculus (house mouse) ]

    Gene ID: 76421, updated on 27-Nov-2024

    Summary

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    Official Symbol
    1700028K03Rikprovided by MGI
    Official Full Name
    RIKEN cDNA 1700028K03 geneprovided by MGI
    Primary source
    MGI:MGI:1923671
    See related
    Ensembl:ENSMUSG00000089798 AllianceGenome:MGI:1923671
    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
    SCRE; Spo16
    Summary
    Involved in reciprocal meiotic recombination and synaptonemal complex assembly. Located in chromosome. Is expressed in gonad; liver; spleen; and uterus. Orthologous to human C1orf146 (chromosome 1 open reading frame 146). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in testis adult (RPKM 1.9), limb E14.5 (RPKM 1.4) and 23 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See 1700028K03Rik in Genome Data Viewer
    Location:
    5 F; 5 52.23 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (107682586..107699415)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (107534720..107551549)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene BTB domain containing 8 Neighboring gene predicted gene, 33885 Neighboring gene LSM12 homolog pseudogene Neighboring gene glomulin, FKBP associated protein Neighboring gene STARR-seq mESC enhancer starr_13890 Neighboring gene STARR-positive B cell enhancer ABC_E1683 Neighboring gene RNA polymerase II associated protein 2 Neighboring gene RIKEN cDNA A930041C12 gene Neighboring gene Gfi1 +35 kb enhancer Neighboring gene RIKEN cDNA 4930428O21 gene Neighboring gene +19.5 kb enhancer downstream of Gfi1

    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. The conserved XPF:ERCC1-like Zip2:Spo16 complex controls meiotic crossover formation through structure-specific DNA binding. Arora K, et al. Nucleic Acids Res, 2019 Mar 18. PMID 30566683, Free PMC Article
    2. SPO16 binds SHOC1 to promote homologous recombination and crossing-over in meiotic prophase I. Zhang Q, et al. Sci Adv, 2019 Jan. PMID 30746471, Free PMC Article
    3. SCRE serves as a unique synaptonemal complex fastener and is essential for progression of meiosis prophase I in mice. Liu H, et al. Nucleic Acids Res, 2019 Jun 20. PMID 30949703, Free PMC Article
    4. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
    5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. This paper reported the function of this gene in meiotic recombination.
      Title: SPO16 binds SHOC1 to promote homologous recombination and crossing-over in meiotic prophase I.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    General gene information

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    Markers

    Potential readthrough

    Included gene: Btbd8

    Homology

    Clone Names

    • MGC117884

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in reciprocal meiotic recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in reciprocal meiotic recombination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in synaptonemal complex assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in synaptonemal complex assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in chromosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in chromosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protein SPO16 homolog
    Names
    synaptonemal complex reinforcing element
    uncharacterized protein C1orf146 homolog

    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_175241.2 → NP_780450.2  protein SPO16 homolog isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has an alternate 3' sequence, as compared to variant 1. The resulting isoform (2) is shorter and has a different C-terminus, as compared to isoform 1.
      Source sequence(s)
      AC134411
      Consensus CDS
      CCDS51586.2
      UniProtKB/TrEMBL
      A0A5F8MPD9, E3W998
      Related
      ENSMUSP00000158924.2, ENSMUST00000238787.2
      Conserved Domains (1) summary
      pfam15162
      Location:10 → 171
      DUF4580; Domain of unknown function (DUF4580)

    2. NM_182745.3 → NP_877422.2  protein SPO16 homolog isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AC134411
      Consensus CDS
      CCDS19504.2
      UniProtKB/Swiss-Prot
      G3X9D1, Q3KQP7, Q8CF32
      UniProtKB/TrEMBL
      A0A803Z0B9
      Related
      ENSMUSP00000058373.9, ENSMUST00000058921.15
      Conserved Domains (1) summary
      pfam15162
      Location:10 → 171
      DUF4580; Domain of unknown function (DUF4580)

    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_000071.7 Reference GRCm39 C57BL/6J

      Range
      107682586..107699415
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3KQP7.3 GenPept UniProtKB/Swiss-Prot:Q3KQP7

    Gene LinkOut

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