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    Smc5 structural maintenance of chromosomes 5 [ Mus musculus (house mouse) ]

    Gene ID: 226026, updated on 5-Sep-2021

    Summary

    Official Symbol
    Smc5provided by MGI
    Official Full Name
    structural maintenance of chromosomes 5provided by MGI
    Primary source
    MGI:MGI:2385088
    See related
    Ensembl:ENSMUSG00000024943
    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
    SMC-5; mSMC5; Smc5l1; MLZ-453; mKIAA0594
    Expression
    Broad expression in CNS E11.5 (RPKM 12.7), CNS E14 (RPKM 8.0) and 17 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Smc5 in Genome Data Viewer
    Location:
    19; 19 B
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (23183805..23251286, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (23206441..23273922, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 19 NC_000085.5 (23283221..23348367, complement)

    Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 2410080I02 gene Neighboring gene microRNA 1192 Neighboring gene Kruppel-like factor 9 Neighboring gene predicted gene, 33950 Neighboring gene predicted gene, 24263 Neighboring gene predicted gene, 41821 Neighboring gene MAM domain containing 2

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC7569, MGC30442

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables molecular_function ND
    No biological Data available
    more info
     
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA recombination IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within DNA repair IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell division IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to DNA damage stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular senescence ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within chromosome condensation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within chromosome segregation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within internal peptidyl-lysine acetylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within mitotic cell cycle phase transition IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of chromosome segregation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of maintenance of mitotic sister chromatid cohesion ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within protein localization to chromosome, centromeric region IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in sister chromatid cohesion IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within stem cell population maintenance IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in telomere maintenance via recombination ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in PML body IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    located_in PML body ISO
    Inferred from Sequence Orthology
    more info
     
    part_of Smc5-Smc6 complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of Smc5-Smc6 complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cell junction ISO
    Inferred from Sequence Orthology
    more info
     
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in chromosome, centromeric region IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in chromosome, telomeric region IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    located_in chromosome, telomeric region ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in interchromatin granule ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in sex chromosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    structural maintenance of chromosomes protein 5
    Names
    SMC protein 5
    SMC5 structural maintenance of chromosomes 5-like 1
    protein expressed in male leptotene and zygotene spermatocytes 453

    NCBI Reference Sequences (RefSeq)

    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_001252684.1NP_001239613.1  structural maintenance of chromosomes protein 5 isoform 1

      See identical proteins and their annotated locations for NP_001239613.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC144941, AJ534941
      Consensus CDS
      CCDS89364.1
      UniProtKB/Swiss-Prot
      Q8CG46
      Related
      ENSMUSP00000084837.7, ENSMUST00000087556.7
      Conserved Domains (2) summary
      cd03277
      Location:9751077
      ABC_SMC5_euk; ATP-binding cassette domain of eukaryotic SMC5 proteins
      COG1196
      Location:531055
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    2. NM_001252685.1NP_001239614.1  structural maintenance of chromosomes protein 5 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, initiates translation at a downstream, in-frame start codon and lacks an exon in the 3' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
      Source sequence(s)
      AC144941, AK161254, CN530965
      Consensus CDS
      CCDS89363.1
      UniProtKB/TrEMBL
      A0A286YDG5
      Related
      ENSMUSP00000153420.2, ENSMUST00000226111.2
      Conserved Domains (2) summary
      cd03277
      Location:885987
      ABC_SMC5_euk; ATP-binding cassette domain of eukaryotic SMC5 proteins
      COG1196
      Location:1965
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    3. NM_153808.2NP_722503.1  structural maintenance of chromosomes protein 5 isoform 2

      See identical proteins and their annotated locations for NP_722503.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an exon in the 3' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC144941
      Consensus CDS
      CCDS37936.1
      UniProtKB/Swiss-Prot
      Q8CG46
      Related
      ENSMUSP00000153364.2, ENSMUST00000223934.2
      Conserved Domains (2) summary
      cd03277
      Location:9611063
      ABC_SMC5_euk; ATP-binding cassette domain of eukaryotic SMC5 proteins
      COG1196
      Location:531041
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000085.7 Reference GRCm39 C57BL/6J

      Range
      23183805..23251286 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006526981.4XP_006527044.1  structural maintenance of chromosomes protein 5 isoform X2

      See identical proteins and their annotated locations for XP_006527044.1

      Conserved Domains (2) summary
      cd03277
      Location:9601062
      ABC_SMC5_euk; ATP-binding cassette domain of eukaryotic SMC5 proteins
      COG1196
      Location:531040
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    2. XM_006526980.4XP_006527043.1  structural maintenance of chromosomes protein 5 isoform X1

      Conserved Domains (2) summary
      cd03277
      Location:9761078
      ABC_SMC5_euk; ATP-binding cassette domain of eukaryotic SMC5 proteins
      COG1196
      Location:531056
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    RNA

    1. XR_001782581.2 RNA Sequence

    2. XR_003952782.1 RNA Sequence

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