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    Nt5dc1 5'-nucleotidase domain containing 1 [ Mus musculus (house mouse) ]

    Gene ID: 319638, updated on 30-Apr-2024

    Summary

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    Official Symbol
    Nt5dc1provided by MGI
    Official Full Name
    5'-nucleotidase domain containing 1provided by MGI
    Primary source
    MGI:MGI:2442446
    See related
    Ensembl:ENSMUSG00000039480 AllianceGenome:MGI:2442446
    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
    Nt5c2l1; 6030401B09Rik
    Summary
    Predicted to enable 5'-nucleotidase activity. Orthologous to human NT5DC1 (5'-nucleotidase domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in bladder adult (RPKM 4.1), CNS E14 (RPKM 3.8) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Nt5dc1 in Genome Data Viewer
    Location:
    10 B1; 10 18.85 cM
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (34179605..34294585, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (34303609..34418589, complement)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 26564 Neighboring gene CapStarr-seq enhancer MGSCv37_chr10:34001757-34001940 Neighboring gene STARR-positive B cell enhancer ABC_E3882 Neighboring gene CapStarr-seq enhancer MGSCv37_chr10:34017128-34017331 Neighboring gene testis-specific protein, Y-encoded-like 1 Neighboring gene TSPY-like 4 Neighboring gene STARR-seq mESC enhancer starr_26275 Neighboring gene collagen, type X, alpha 1 Neighboring gene STARR-seq mESC enhancer starr_26277 Neighboring gene fyn-related kinase Neighboring gene STARR-seq mESC enhancer starr_26278 Neighboring gene STARR-seq mESC enhancer starr_26279 Neighboring gene STARR-seq mESC enhancer starr_26280 Neighboring gene CWC22 spliceosome-associated protein homolog pseudogene

    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. Structure of pyrimidine 5'-nucleotidase type 1. Insight into mechanism of action and inhibition during lead poisoning. Bitto E, et al. J Biol Chem, 2006 Jul 21. PMID 16672222
    2. Construction of long-transcript enriched cDNA libraries from submicrogram amounts of total RNAs by a universal PCR amplification method. Piao Y, et al. Genome Res, 2001 Sep. PMID 11544199, Free PMC Article
    3. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
    4. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article
    5. 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

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Inhibited by lead which binds at the active site and my inhibit lead poisoning.
      Title: Structure of pyrimidine 5'-nucleotidase type 1. Insight into mechanism of action and inhibition during lead poisoning.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC107414

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables 5'-nucleotidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    5'-nucleotidase domain-containing protein 1
    Names
    5'-nucleotidase, cytosolic II-like 1
    cytosolic 5'-nucleotidase II-like protein 1

    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_001347463.1 → NP_001334392.1  5'-nucleotidase domain-containing protein 1 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an exon in the 5' coding region compared to variant 1. This variant represents translation initiation at a downstream start codon compared to variant 1; the 5'-most initiation codon, as used in variant 1, is associated with a truncated ORF that would render the transcript a candidate for nonsense-mediated decay (NMD). Leaky scanning results in translation initiation at the downstream start codon to encode an isoform (2) that has a shorter N-terminus, compared to isoform 1.
      Source sequence(s)
      AK049656, BB618670, BC098476
      UniProtKB/Swiss-Prot
      Q8C5P5

    2. NM_176968.5 → NP_795942.2  5'-nucleotidase domain-containing protein 1 isoform 1

      See identical proteins and their annotated locations for NP_795942.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK145666, BB618670, BC098476
      Consensus CDS
      CCDS23779.1
      UniProtKB/Swiss-Prot
      Q3TAL3, Q3TPT8, Q3TTI3, Q3UL73, Q4G0D1, Q8C5P5
      UniProtKB/TrEMBL
      Q05AG7
      Related
      ENSMUSP00000047126.8, ENSMUST00000047885.14
      Conserved Domains (1) summary
      cl17687
      Location:11 → 347
      5_nucleotid; 5' nucleotidase family

    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_000076.7 Reference GRCm39 C57BL/6J

      Range
      34179605..34294585 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006512764.4 → XP_006512827.1  5'-nucleotidase domain-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      E9QN01
      Related
      ENSMUSP00000097553.4, ENSMUST00000099973.4
      Conserved Domains (1) summary
      cl21460
      Location:7 → 187
      HAD_like; Haloacid Dehalogenase-like Hydrolases
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8C5P5.2 GenPept UniProtKB/Swiss-Prot:Q8C5P5

    Gene LinkOut

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

    Other Literature Sources
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