U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Ncapd3 non-SMC condensin II complex, subunit D3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 315508, updated on 6-Jun-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Ncapd3provided by RGD
    Official Full Name
    non-SMC condensin II complex, subunit D3provided by RGD
    Primary source
    RGD:1562176
    See related
    Ensembl:ENSRNOG00000008932 AllianceGenome:RGD:1562176
    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
    Summary
    Predicted to enable methylated histone binding activity. Predicted to be involved in meiotic chromosome condensation and mitotic chromosome condensation. Predicted to act upstream of or within meiotic chromosome separation. Predicted to be located in chromosome, centromeric region and nucleus. Predicted to be part of condensin complex. Predicted to be active in condensed chromosome, centromeric region. Human ortholog(s) of this gene implicated in primary autosomal recessive microcephaly. Orthologous to human NCAPD3 (non-SMC condensin II complex subunit D3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 115.5), Spleen (RPKM 85.5) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Ncapd3 in Genome Data Viewer
    Location:
    8q13
    Exon count:
    37
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (33696214..33765520)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (25437067..25506375)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (28075629..28145024)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene thymocyte nuclear protein 1 Neighboring gene VPS26 retromer complex component B Neighboring gene uncharacterized LOC134480003 Neighboring gene junctional adhesion molecule 3 Neighboring gene uncharacterized LOC134480004

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Loss of pRB causes centromere dysfunction and chromosomal instability. Manning AL, et al. Genes Dev, 2010 Jul 1. PMID 20551165, Free PMC Article
    2. Mutations in genes encoding condensin complex proteins cause microcephaly through decatenation failure at mitosis. Martin CA, et al. Genes Dev, 2016 Oct 1. PMID 27737959, Free PMC Article
    3. PHF8 mediates histone H4 lysine 20 demethylation events involved in cell cycle progression. Liu W, et al. Nature, 2010 Jul 22. PMID 20622854, Free PMC Article
    4. Condensins I and II are essential for construction of bivalent chromosomes in mouse oocytes. Lee J, et al. Mol Biol Cell, 2011 Sep. PMID 21795393, Free PMC Article
    5. Differential contributions of condensin I and condensin II to mitotic chromosome architecture in vertebrate cells. Ono T, et al. Cell, 2003 Oct 3. PMID 14532007

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables methylated histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in meiotic chromosome condensation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within meiotic chromosome separation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mitotic chromosome condensation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mitotic chromosome condensation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of chromosome segregation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of chromosome separation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in condensed chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in condensed chromosome, centromeric region IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in condensed nuclear chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of condensin complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of condensin complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in germinal vesicle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in kinetochore ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of pericentric heterochromatin ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    condensin-2 complex subunit D3

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001034000.1 → NP_001029172.1  condensin-2 complex subunit D3

      See identical proteins and their annotated locations for NP_001029172.1

      Status: VALIDATED

      Source sequence(s)
      BC101928
      UniProtKB/TrEMBL
      A6JYD9, F1LMD2, Q3T1H0
      Related
      ENSRNOP00000012078.7, ENSRNOT00000012078.8
      Conserved Domains (3) summary
      pfam12717
      Location:948 → 1147
      Cnd1; non-SMC mitotic condensation complex subunit 1
      sd00044
      Location:538 → 566
      HEAT; HEAT repeat [structural motif]
      cl02544
      Location:538 → 603
      VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal ...

    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_086026.1 Reference GRCr8

      Range
      33696214..33765520
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006242736.4 → XP_006242798.1  condensin-2 complex subunit D3 isoform X1

      See identical proteins and their annotated locations for XP_006242798.1

      UniProtKB/TrEMBL
      A0A140UHX3, A6JYD9
      Conserved Domains (3) summary
      pfam12717
      Location:951 → 1150
      Cnd1; non-SMC mitotic condensation complex subunit 1
      sd00044
      Location:541 → 569
      HEAT; HEAT repeat [structural motif]
      cl02544
      Location:541 → 606
      VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal ...

    2. XM_006242735.5 → XP_006242797.1  condensin-2 complex subunit D3 isoform X1

      See identical proteins and their annotated locations for XP_006242797.1

      UniProtKB/TrEMBL
      A0A140UHX3, A6JYD9
      Conserved Domains (3) summary
      pfam12717
      Location:951 → 1150
      Cnd1; non-SMC mitotic condensation complex subunit 1
      sd00044
      Location:541 → 569
      HEAT; HEAT repeat [structural motif]
      cl02544
      Location:541 → 606
      VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal ...

    3. XM_063265375.1 → XP_063121445.1  condensin-2 complex subunit D3 isoform X1

      UniProtKB/TrEMBL
      A0A140UHX3, A6JYD9

    4. XM_039081366.2 → XP_038937294.1  condensin-2 complex subunit D3 isoform X2

      Conserved Domains (4) summary
      sd00044
      Location:541 → 569
      HEAT; HEAT repeat [structural motif]
      pfam12717
      Location:953 → 1029
      Cnd1; non-SMC mitotic condensation complex subunit 1
      cd19953
      Location:579 → 604
      PDS5; HEAT repeat [structural motif]
      cl15079
      Location:457 → 604
      PDS5; Sister chromatid cohesion protein PDS5
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous