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    C87436 expressed sequence C87436 [ Mus musculus (house mouse) ]

    Gene ID: 232196, updated on 27-Nov-2024

    Summary

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    Official Symbol
    C87436provided by MGI
    Official Full Name
    expressed sequence C87436provided by MGI
    Primary source
    MGI:MGI:2141787
    See related
    Ensembl:ENSMUSG00000046679 AllianceGenome:MGI:2141787
    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
    Summary
    Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to human C2orf42 (chromosome 2 open reading frame 42). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in testis adult (RPKM 20.2), bladder adult (RPKM 4.9) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See C87436 in Genome Data Viewer
    Location:
    6 D1; 6 37.69 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (86411616..86447370)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (86434637..86470388)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_16526 Neighboring gene nuclear encoded tRNA glycine 4 (anticodon CCC) Neighboring gene cytotoxic granule-associated RNA binding protein 1 Neighboring gene STARR-positive B cell enhancer ABC_E6450 Neighboring gene STARR-positive B cell enhancer ABC_E8112 Neighboring gene STARR-seq mESC enhancer starr_16527 Neighboring gene RIKEN cDNA A430078I02 gene Neighboring gene RIKEN cDNA 2310040G24 gene Neighboring gene STARR-seq mESC enhancer starr_16530 Neighboring gene predicted gene, 52866

    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. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808
    2. A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Hansen J, et al. Proc Natl Acad Sci U S A, 2003 Aug 19. PMID 12904583, Free PMC Article
    3. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
    4. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article
    5. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199

    See all (18) 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)
    • Gene trapped (2) 

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC25529

    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
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    uncharacterized protein C2orf42 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_001243741.1 → NP_001230670.1  uncharacterized protein C2orf42 homolog isoform 2

      See identical proteins and their annotated locations for NP_001230670.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and uses an alternate splice site in the 5' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AK077503, BE332233, BF460653, BU613064
      Consensus CDS
      CCDS57435.1
      UniProtKB/Swiss-Prot
      Q8R3C1
      Related
      ENSMUSP00000109328.2, ENSMUST00000113698.8
      Conserved Domains (1) summary
      pfam14952
      Location:16 → 56
      zf-tcix; Putative treble-clef, zinc-finger, Zn-binding

    2. NM_001243742.1 → NP_001230671.1  uncharacterized protein C2orf42 homolog isoform 1

      See identical proteins and their annotated locations for NP_001230671.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1 and 4 encode the same isoform (1).
      Source sequence(s)
      AC153374
      Consensus CDS
      CCDS20313.1
      UniProtKB/Swiss-Prot
      Q3TB16, Q8BK22, Q8BXH4, Q8R2Z4, Q8R3C1
      Related
      ENSMUSP00000109330.2, ENSMUST00000113700.8
      Conserved Domains (1) summary
      pfam14952
      Location:16 → 57
      zf-tcix; Putative treble-clef, zinc-finger, Zn-binding

    3. NM_001364555.1 → NP_001351484.1  uncharacterized protein C2orf42 homolog isoform 1

      Status: VALIDATED

      Source sequence(s)
      AK047127, AK077503, BF460653, BY123950, CD354932
      Consensus CDS
      CCDS20313.1
      UniProtKB/Swiss-Prot
      Q3TB16, Q8BK22, Q8BXH4, Q8R2Z4, Q8R3C1
      Conserved Domains (1) summary
      pfam14952
      Location:16 → 57
      zf-tcix; Putative treble-clef, zinc-finger, Zn-binding

    4. NM_001364556.1 → NP_001351485.1  uncharacterized protein C2orf42 homolog isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC153374
      Consensus CDS
      CCDS20313.1
      UniProtKB/Swiss-Prot
      Q3TB16, Q8BK22, Q8BXH4, Q8R2Z4, Q8R3C1
      Conserved Domains (1) summary
      pfam14952
      Location:16 → 57
      zf-tcix; Putative treble-clef, zinc-finger, Zn-binding

    5. NM_001364557.1 → NP_001351486.1  uncharacterized protein C2orf42 homolog isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC153374
      Consensus CDS
      CCDS20313.1
      UniProtKB/Swiss-Prot
      Q3TB16, Q8BK22, Q8BXH4, Q8R2Z4, Q8R3C1
      Conserved Domains (1) summary
      pfam14952
      Location:16 → 57
      zf-tcix; Putative treble-clef, zinc-finger, Zn-binding

    6. NM_001364558.1 → NP_001351487.1  uncharacterized protein C2orf42 homolog isoform 2

      Status: VALIDATED

      Source sequence(s)
      AK077503, BF460653, BU613064, BY123950, BY237827
      Consensus CDS
      CCDS57435.1
      Conserved Domains (1) summary
      pfam14952
      Location:16 → 56
      zf-tcix; Putative treble-clef, zinc-finger, Zn-binding

    7. NM_146170.5 → NP_666282.3  uncharacterized protein C2orf42 homolog isoform 1

      See identical proteins and their annotated locations for NP_666282.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the shortest transcript and encodes the longer isoform (1). Variants 1 and 4 encode the same isoform.
      Source sequence(s)
      AC153374
      Consensus CDS
      CCDS20313.1
      UniProtKB/Swiss-Prot
      Q3TB16, Q8BK22, Q8BXH4, Q8R2Z4, Q8R3C1
      Related
      ENSMUSP00000057461.8, ENSMUST00000050497.14
      Conserved Domains (1) summary
      pfam14952
      Location:16 → 57
      zf-tcix; Putative treble-clef, zinc-finger, Zn-binding

    RNA

    1. NR_157222.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC153374
      Related
      ENSMUST00000141972.8

    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_000072.7 Reference GRCm39 C57BL/6J

      Range
      86411616..86447370
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030255339.2 → XP_030111199.1  uncharacterized protein C2orf42 homolog isoform X2

      Conserved Domains (1) summary
      pfam14952
      Location:16 → 56
      zf-tcix; Putative treble-clef, zinc-finger, Zn-binding

    2. XM_006505973.5 → XP_006506036.1  uncharacterized protein C2orf42 homolog isoform X1

      See identical proteins and their annotated locations for XP_006506036.1

      UniProtKB/Swiss-Prot
      Q3TB16, Q8BK22, Q8BXH4, Q8R2Z4, Q8R3C1
      Conserved Domains (1) summary
      pfam14952
      Location:16 → 57
      zf-tcix; Putative treble-clef, zinc-finger, Zn-binding

    3. XM_036166048.1 → XP_036021941.1  uncharacterized protein C2orf42 homolog isoform X1

      UniProtKB/Swiss-Prot
      Q3TB16, Q8BK22, Q8BXH4, Q8R2Z4, Q8R3C1
      Conserved Domains (1) summary
      pfam14952
      Location:16 → 57
      zf-tcix; Putative treble-clef, zinc-finger, Zn-binding

    4. XM_006505975.5 → XP_006506038.1  uncharacterized protein C2orf42 homolog isoform X1

      See identical proteins and their annotated locations for XP_006506038.1

      UniProtKB/Swiss-Prot
      Q3TB16, Q8BK22, Q8BXH4, Q8R2Z4, Q8R3C1
      Conserved Domains (1) summary
      pfam14952
      Location:16 → 57
      zf-tcix; Putative treble-clef, zinc-finger, Zn-binding

    RNA

    1. XR_004942940.1 RNA Sequence

    2. XR_004942941.1 RNA Sequence

    3. XR_004942938.1 RNA Sequence

    4. XR_377440.4 RNA Sequence

    5. XR_004942939.1 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NR_027369.1: Suppressed sequence

      Description
      NR_027369.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8R3C1.1 GenPept UniProtKB/Swiss-Prot:Q8R3C1

    Gene LinkOut

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

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