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    Ncapd3 non-SMC condensin II complex, subunit D3 [ Mus musculus (house mouse) ]

    Gene ID: 78658, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Ncapd3provided by MGI
    Official Full Name
    non-SMC condensin II complex, subunit D3provided by MGI
    Primary source
    MGI:MGI:2142989
    See related
    Ensembl:ENSMUSG00000035024 AllianceGenome:MGI:2142989
    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
    mKIAA0056; 2810487N22Rik; 4632407J06Rik; B130055D15Rik
    Summary
    Predicted to enable methylated histone binding activity. Involved in positive regulation of chromosome segregation and positive regulation of chromosome separation. Acts upstream of or within meiotic chromosome separation. Located in condensed nuclear chromosome; germinal vesicle; and kinetochore. Part of condensin complex. Is expressed in cerebral cortex subventricular zone. 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, Nov 2024]
    Expression
    Ubiquitous expression in liver E14.5 (RPKM 11.5), liver E14 (RPKM 11.1) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Ncapd3 in Genome Data Viewer
    Location:
    9 A4; 9 12.12 cM
    Exon count:
    38
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (26941455..27008667)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (27030165..27096522)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene acyl-Coenzyme A dehydrogenase family, member 8 Neighboring gene STARR-positive B cell enhancer ABC_E8282 Neighboring gene thymocyte nuclear protein 1 Neighboring gene VPS26 retromer complex component B Neighboring gene STARR-positive B cell enhancer ABC_E8283 Neighboring gene STARR-positive B cell enhancer ABC_E3819 Neighboring gene STARR-seq mESC enhancer starr_23617 Neighboring gene junction adhesion molecule 3 Neighboring gene STARR-seq mESC enhancer starr_23618 Neighboring gene predicted gene, 57534 Neighboring gene predicted gene, 53501

    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. Overlapping and non-overlapping functions of condensins I and II in neural stem cell divisions. Nishide K, et al. PLoS Genet, 2014 Dec. PMID 25474630, Free PMC Article
    2. Reconstitution and subunit geometry of human condensin complexes. Onn I, et al. EMBO J, 2007 Feb 21. PMID 17268547, Free PMC Article
    3. 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
    4. Molecular Profiling Reveals Involvement of ESCO2 in Intermediate Progenitor Cell Maintenance in the Developing Mouse Cortex. Ulmke PA, et al. Stem Cell Reports, 2021 Apr 13. PMID 33798452, Free PMC Article
    5. Prediction of the coding sequences of mouse homologues of KIAA gene: III. the complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2003 Aug 31. PMID 14621295

    See all (23) 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)
    • Endonuclease-mediated (3) 
    • Gene trapped (1) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    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 IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 mitotic chromosome condensation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of chromosome condensation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of chromosome segregation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of chromosome separation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in condensed chromosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in condensed chromosome, centromeric region IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in condensed nuclear chromosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of condensin complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of condensin complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of condensin complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of condensin complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of condensin complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of condensin complex TAS
    Traceable Author Statement
    more info
    		 PubMed 
    located_in germinal vesicle IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in kinetochore IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in pericentric heterochromatin ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    condensin-2 complex subunit D3
    Names
    Jacobsen syndrome region 2

    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_001382847.1 → NP_001369776.1  condensin-2 complex subunit D3 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC156163, CT025660
      Conserved Domains (2) summary
      sd00044
      Location:94 → 123
      HEAT; HEAT repeat [structural motif]
      pfam12717
      Location:109 → 285
      Cnd1; non-SMC mitotic condensation complex subunit 1

    2. NM_178113.4 → NP_835214.2  condensin-2 complex subunit D3 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC156163, CT025660
      Consensus CDS
      CCDS57665.1
      UniProtKB/Swiss-Prot
      E9QPR0, Q6ZQK0, Q9CS21
      UniProtKB/TrEMBL
      A0EQY3, K4DI67, Q3UTU7
      Related
      ENSMUSP00000072871.8, ENSMUST00000073127.14
      Conserved Domains (3) summary
      sd00044
      Location:538 → 566
      HEAT; HEAT repeat [structural motif]
      pfam12717
      Location:951 → 1115
      Cnd1; non-SMC mitotic condensation complex subunit 1
      cl02544
      Location:538 → 603
      VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily

    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_000075.7 Reference GRCm39 C57BL/6J

      Range
      26941455..27008667
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006510698.5 → XP_006510761.1  condensin-2 complex subunit D3 isoform X3

      UniProtKB/Swiss-Prot
      E9QPR0, Q6ZQK0, Q9CS21
      Conserved Domains (3) summary
      sd00044
      Location:401 → 429
      HEAT; HEAT repeat [structural motif]
      pfam12717
      Location:814 → 978
      Cnd1; non-SMC mitotic condensation complex subunit 1
      cl02544
      Location:401 → 466
      VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily

    2. XM_036155410.1 → XP_036011303.1  condensin-2 complex subunit D3 isoform X4

      UniProtKB/Swiss-Prot
      E9QPR0, Q6ZQK0, Q9CS21
      Conserved Domains (2) summary
      sd00044
      Location:401 → 429
      HEAT; HEAT repeat [structural motif]
      cl02544
      Location:401 → 466
      VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily

    3. XM_006510697.5 → XP_006510760.1  condensin-2 complex subunit D3 isoform X2

      UniProtKB/Swiss-Prot
      E9QPR0, Q6ZQK0, Q9CS21
      UniProtKB/TrEMBL
      A0EQY3, Q3UTU7
      Conserved Domains (3) summary
      sd00044
      Location:538 → 566
      HEAT; HEAT repeat [structural motif]
      pfam12717
      Location:913 → 1058
      Cnd1; non-SMC mitotic condensation complex subunit 1
      cl02544
      Location:538 → 603
      VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily

    4. XM_017313698.1 → XP_017169187.1  condensin-2 complex subunit D3 isoform X1

      UniProtKB/Swiss-Prot
      E9QPR0, Q6ZQK0, Q9CS21
      UniProtKB/TrEMBL
      A0EQY3, K4DI67, Q3UTU7
      Related
      ENSMUSP00000150938.2, ENSMUST00000216677.2
      Conserved Domains (3) summary
      sd00044
      Location:538 → 566
      HEAT; HEAT repeat [structural motif]
      pfam12717
      Location:951 → 1115
      Cnd1; non-SMC mitotic condensation complex subunit 1
      cl02544
      Location:538 → 603
      VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily

    5. XM_011242627.4 → XP_011240929.1  condensin-2 complex subunit D3 isoform X5

      Conserved Domains (2) summary
      sd00044
      Location:222 → 251
      HEAT; HEAT repeat [structural motif]
      pfam12717
      Location:237 → 401
      Cnd1; non-SMC mitotic condensation complex subunit 1

    RNA

    1. XR_004935607.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6ZQK0.3 GenPept UniProtKB/Swiss-Prot:Q6ZQK0

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