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    BC028528 cDNA sequence BC028528 [ Mus musculus (house mouse) ]

    Gene ID: 229600, updated on 5-Mar-2024

    Summary

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    Official Symbol
    BC028528provided by MGI
    Official Full Name
    cDNA sequence BC028528provided by MGI
    Primary source
    MGI:MGI:2385885
    See related
    Ensembl:ENSMUSG00000038543 AllianceGenome:MGI:2385885
    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
    L259
    Summary
    Predicted to be located in extracellular region. Orthologous to human C1orf54 (chromosome 1 open reading frame 54). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in lung adult (RPKM 15.9), bladder adult (RPKM 3.2) and 21 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See BC028528 in Genome Data Viewer
    Location:
    3 F2.1; 3 41.44 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (95789665..95800186, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (95883945..95892062, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene pre-mRNA processing factor 3 Neighboring gene STARR-positive B cell enhancer ABC_E10199 Neighboring gene RIKEN cDNA C920021L13 gene Neighboring gene mitochondrial ribosomal protein S21 Neighboring gene STARR-positive B cell enhancer ABC_E9562 Neighboring gene circadian associated repressor of transcription Neighboring gene STARR-positive B cell enhancer ABC_E2673 Neighboring gene aph1 homolog A, gamma secretase subunit Neighboring gene carbonic anhydrase 14 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:95732686-95732932 Neighboring gene predicted gene, 46815

    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. Tubular epithelial C1orf54 mediates protection and recovery from acute kidney injury. Xie H, et al. J Cell Mol Med, 2018 Oct. PMID 29999589, Free PMC Article
    2. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article
    3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    4. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

    See all (6) 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 (3)  1 citation
    • Endonuclease-mediated (2) 

    General gene information

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    Homology

    Clone Names

    • MGC41379

    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 biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    uncharacterized protein C1orf54 homolog

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_001346514.2 → NP_001333443.1  uncharacterized protein C1orf54 homolog isoform 2 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains an alternate in-frame splice site in the 3' coding region, compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
      Source sequence(s)
      AC092855
      Consensus CDS
      CCDS84656.1
      UniProtKB/Swiss-Prot
      Q8R2K8
      Related
      ENSMUSP00000046810.7, ENSMUST00000036360.13
      Conserved Domains (1) summary
      pfam15465
      Location:1 → 145
      DUF4634; Domain of unknown function (DUF4634)

    2. NM_001399777.1 → NP_001386706.1  uncharacterized protein C1orf54 homolog isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC092855

    3. NM_153513.4 → NP_705733.2  uncharacterized protein C1orf54 homolog isoform 1 precursor

      See identical proteins and their annotated locations for NP_705733.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC092855
      Consensus CDS
      CCDS50998.1
      UniProtKB/Swiss-Prot
      Q8K3T8, Q8R2K8
      Related
      ENSMUSP00000102749.2, ENSMUST00000090476.10
      Conserved Domains (1) summary
      pfam15465
      Location:1 → 146
      DUF4634; Domain of unknown function (DUF4634)

    RNA

    1. NR_166867.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC092855

    2. NR_166868.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC092855

    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
      95789665..95800186 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036163066.1 → XP_036018959.1  uncharacterized protein C1orf54 homolog isoform X3

      Conserved Domains (1) summary
      pfam15465
      Location:1 → 106
      DUF4634; Domain of unknown function (DUF4634)

    2. XM_006501379.2 → XP_006501442.1  uncharacterized protein C1orf54 homolog isoform X4

      Conserved Domains (1) summary
      pfam15465
      Location:1 → 141
      DUF4634; Domain of unknown function (DUF4634)

    3. XM_036163065.1 → XP_036018958.1  uncharacterized protein C1orf54 homolog isoform X2

      Conserved Domains (1) summary
      pfam15465
      Location:6 → 98
      DUF4634; Domain of unknown function (DUF4634)

    4. XM_011240095.4 → XP_011238397.1  uncharacterized protein C1orf54 homolog isoform X1

      Conserved Domains (1) summary
      pfam15465
      Location:1 → 106
      DUF4634; Domain of unknown function (DUF4634)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8R2K8.2 GenPept UniProtKB/Swiss-Prot:Q8R2K8

    Gene LinkOut

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

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