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

Gene ID: 78658, updated on 8-Feb-2024

Summary

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. Acts upstream of or within meiotic chromosome separation. Located in germinal vesicle and kinetochore. Part of condensin complex. 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
Ubiquitous expression in liver E14.5 (RPKM 11.5), liver E14 (RPKM 11.1) and 28 other tissues See more
Orthologs
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Genomic context

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

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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Endonuclease-mediated (2) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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
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
 
acts_upstream_of_or_within chromosome condensation 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 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 IDA
Inferred from Direct Assay
more info
PubMed 
part_of condensin complex ISO
Inferred from Sequence Orthology
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 nucleus IEA
Inferred from Electronic Annotation
more info
 
part_of pericentric heterochromatin ISO
Inferred from Sequence Orthology
more info
 

General protein information

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

    Status: VALIDATED

    Source sequence(s)
    AC156163, CT025660
    Conserved Domains (2) summary
    sd00044
    Location:94123
    HEAT; HEAT repeat [structural motif]
    pfam12717
    Location:109285
    Cnd1; non-SMC mitotic condensation complex subunit 1
  2. NM_178113.4NP_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:538566
    HEAT; HEAT repeat [structural motif]
    pfam12717
    Location:9511115
    Cnd1; non-SMC mitotic condensation complex subunit 1
    cl02544
    Location:538603
    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_006510698.5XP_006510761.1  condensin-2 complex subunit D3 isoform X3

    UniProtKB/Swiss-Prot
    E9QPR0, Q6ZQK0, Q9CS21
    Conserved Domains (3) summary
    sd00044
    Location:401429
    HEAT; HEAT repeat [structural motif]
    pfam12717
    Location:814978
    Cnd1; non-SMC mitotic condensation complex subunit 1
    cl02544
    Location:401466
    VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily
  2. XM_036155410.1XP_036011303.1  condensin-2 complex subunit D3 isoform X4

    UniProtKB/Swiss-Prot
    E9QPR0, Q6ZQK0, Q9CS21
    Conserved Domains (2) summary
    sd00044
    Location:401429
    HEAT; HEAT repeat [structural motif]
    cl02544
    Location:401466
    VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily
  3. XM_006510697.5XP_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:538566
    HEAT; HEAT repeat [structural motif]
    pfam12717
    Location:9131058
    Cnd1; non-SMC mitotic condensation complex subunit 1
    cl02544
    Location:538603
    VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily
  4. XM_017313698.1XP_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:538566
    HEAT; HEAT repeat [structural motif]
    pfam12717
    Location:9511115
    Cnd1; non-SMC mitotic condensation complex subunit 1
    cl02544
    Location:538603
    VHS_ENTH_ANTH; VHS, ENTH and ANTH domain superfamily
  5. XM_011242627.4XP_011240929.1  condensin-2 complex subunit D3 isoform X5

    Conserved Domains (2) summary
    sd00044
    Location:222251
    HEAT; HEAT repeat [structural motif]
    pfam12717
    Location:237401
    Cnd1; non-SMC mitotic condensation complex subunit 1

RNA

  1. XR_004935607.1 RNA Sequence