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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

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