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    Smc3 structural maintenance of chromosomes 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 29486, updated on 9-Dec-2024

    Summary

    Official Symbol
    Smc3provided by RGD
    Official Full Name
    structural maintenance of chromosomes 3provided by RGD
    Primary source
    RGD:62006
    See related
    EnsemblRapid:ENSRNOG00000014173 AllianceGenome:RGD:62006
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Cspg6; SMC-3; bamacan
    Summary
    Predicted to enable several functions, including beta-tubulin binding activity; dynein complex binding activity; and mediator complex binding activity. Involved in meiotic cell cycle. Located in basement membrane and synaptonemal complex. Human ortholog(s) of this gene implicated in Cornelia de Lange syndrome 3; hepatocellular carcinoma; and intellectual disability. Orthologous to human SMC3 (structural maintenance of chromosomes 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 249.9), Lung (RPKM 201.3) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Smc3 in Genome Data Viewer
    Location:
    1q55
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (262606731..262649832)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (252601422..252644522)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (274310120..274352856)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene RNA pseudouridylate synthase domain-containing protein 1-like Neighboring gene ribosomal protein S12-like 2 Neighboring gene RNA binding motif protein 20 Neighboring gene uncharacterized LOC134484117 Neighboring gene uncharacterized LOC120100058

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    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 beta-tubulin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables beta-tubulin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables chromatin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables double-stranded DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables dynein complex binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables dynein complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables dynein complex binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables mediator complex binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables mediator complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein heterodimerization activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein heterodimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chromosome organization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in meiotic cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in meiotic cell cycle IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    acts_upstream_of_or_within meiotic cell cycle ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in meiotic cell cycle ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in meiotic cell cycle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in mitotic sister chromatid cohesion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mitotic spindle assembly IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mitotic spindle assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of DNA replication IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of DNA replication ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of DNA replication ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in sister chromatid cohesion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in sister chromatid cohesion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in stem cell population maintenance IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within stem cell population maintenance ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in basement membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in basement membrane TAS
    Traceable Author Statement
    more info
    PubMed 
    located_in chromatin IEA
    Inferred from Electronic Annotation
    more info
     
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    located_in chromatin ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in chromosome, centromeric region IEA
    Inferred from Electronic Annotation
    more info
     
    part_of cohesin complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in lateral element IEA
    Inferred from Electronic Annotation
    more info
     
    located_in lateral element ISO
    Inferred from Sequence Orthology
    more info
     
    part_of meiotic cohesin complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of meiotic cohesin complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of meiotic cohesin complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of mitotic cohesin complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of mitotic cohesin complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of mitotic cohesin complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitotic spindle pole IEA
    Inferred from Electronic Annotation
    more info
     
    located_in mitotic spindle pole ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitotic spindle pole ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in nuclear matrix IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nuclear matrix ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear matrix ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in synaptonemal complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    structural maintenance of chromosomes protein 3
    Names
    SMC protein 3
    basement membrane chondroitin sulfate proteoglycan
    basement membrane-associated chondroitin proteoglycan
    chondroitin sulfate proteoglycan 6
    chromosome segregation protein SmcD
    structural maintenace of chromosomes 3

    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_031583.2NP_113771.2  structural maintenance of chromosomes protein 3

      See identical proteins and their annotated locations for NP_113771.2

      Status: VALIDATED

      Source sequence(s)
      BE109731, BF396983, BP486487, BP499171, CA509998, CA511001, CO395251, EV773232, EV776219
      UniProtKB/Swiss-Prot
      P97690
      UniProtKB/TrEMBL
      A6JHW2
      Related
      ENSRNOP00000051571.3, ENSRNOT00000054686.4
      Conserved Domains (1) summary
      COG1196
      Location:11194
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086019.1 Reference GRCr8

      Range
      262606731..262649832
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039109434.2XP_038965362.1  structural maintenance of chromosomes protein 3 isoform X1

      UniProtKB/Swiss-Prot
      P97690
      Conserved Domains (1) summary
      COG1196
      Location:11170
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]