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    3830403N18Rik RIKEN cDNA 3830403N18 gene [ Mus musculus (house mouse) ]

    Gene ID: 70691, updated on 8-Feb-2024

    Summary

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    Official Symbol
    3830403N18Rikprovided by MGI
    Official Full Name
    RIKEN cDNA 3830403N18 geneprovided by MGI
    Primary source
    MGI:MGI:1917941
    See related
    Ensembl:ENSMUSG00000031125 AllianceGenome:MGI:1917941
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Xlrl
    Summary
    Acts upstream of or within hematopoietic progenitor cell differentiation. Predicted to be located in lateral element. Predicted to be active in synaptonemal complex. Human ortholog(s) of this gene implicated in spermatogenic failure 4. Orthologous to human SYCP3 (synaptonemal complex protein 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    See 3830403N18Rik in Genome Data Viewer
    Location:
    X A5; X 30.06 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (54884612..55198856)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (55839252..56153496)

    Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene predicted gene 14622 Neighboring gene predicted gene 6664 Neighboring gene predicted gene, 19106 Neighboring gene predicted gene 7927 Neighboring gene predicted gene 14623 Neighboring gene high mobility group box 1-like pseudogene Neighboring gene predicted gene, 35586 Neighboring gene predicted gene, 35536 Neighboring gene multifunctional methyltransferase subunit TRM112-like protein pseudogene Neighboring gene STARR-seq mESC enhancer starr_47203 Neighboring gene predicted gene, 35487 Neighboring gene multifunctional methyltransferase subunit TRM112-like protein pseudogene Neighboring gene STARR-seq mESC enhancer starr_47204 Neighboring gene STARR-seq mESC enhancer starr_47205 Neighboring gene tumor necrosis factor, alpha-induced protein 1 (endothelial) pseudogene Neighboring gene multifunctional methyltransferase subunit TRM112-like protein pseudogene Neighboring gene transformer 2 beta homolog pseudogene Neighboring gene high mobility group box 1 pseudogene Neighboring gene predicted gene 773

    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. Haploinsufficiency of SAMD9L, an endosome fusion facilitator, causes myeloid malignancies in mice mimicking human diseases with monosomy 7. Nagamachi A, et al. Cancer Cell, 2013 Sep 9. PMID 24029230
    2. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
    3. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    4. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
    5. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within hematopoietic progenitor cell differentiation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in meiotic cell cycle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in spermatid development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in synaptonemal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    Xlr-like; xlr-like

    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_027510.2 → NP_081786.1  Xlr-like

      See identical proteins and their annotated locations for NP_081786.1

      Status: PROVISIONAL

      Source sequence(s)
      AK014416
      Consensus CDS
      CCDS30141.1
      UniProtKB/TrEMBL
      Q9D6C3
      Related
      ENSMUSP00000033458.3, ENSMUST00000033458.3
      Conserved Domains (1) summary
      pfam04803
      Location:63 → 182
      Cor1; Cor1/Xlr/Xmr conserved region

    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_000086.8 Reference GRCm39 C57BL/6J

      Range
      54884612..55198856
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011247677.1 → XP_011245979.1  xlr-like isoform X2

      Conserved Domains (1) summary
      pfam04803
      Location:100 → 163
      Cor1; Cor1/Xlr/Xmr conserved region

    2. XM_011247676.1 → XP_011245978.1  xlr-like isoform X1

      Conserved Domains (1) summary
      pfam04803
      Location:100 → 163
      Cor1; Cor1/Xlr/Xmr conserved region
    Nucleotide Protein Strain
    Heading Accession and Version

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