This gene encodes a protein that may be involved in kinetochore-microtubule interaction and spindle checkpoint activity. [provided by RefSeq, Jul 2008] See more...

Aliases for SPC25 Gene

Aliases for SPC25 Gene

  • SPC25 Component Of NDC80 Kinetochore Complex 2 3 5
  • Kinetochore Protein Spc25 3 4
  • SPBC25 3 4
  • HSpc25 3 4
  • AD024 2 3
  • SPC25, NDC80 Kinetochore Complex Component, Homolog (S. Cerevisiae) 2
  • Spindle Pole Body Component 25 Homolog (S. Cerevisiae) 2
  • SPC25, NDC80 Kinetochore Complex Component, Homolog 3
  • SPC25, NDC80 Kinetochore Complex Component 2
  • Spindle Pole Body Component 25 Homolog 3
  • 2600017H08Rik 3
  • MGC22228 2
  • SPC25 5

External Ids for SPC25 Gene

Previous HGNC Symbols for SPC25 Gene

  • SPBC25

Previous GeneCards Identifiers for SPC25 Gene

  • GC02M169436
  • GC02M169690
  • GC02M161623

Summaries for SPC25 Gene

Entrez Gene Summary for SPC25 Gene

  • This gene encodes a protein that may be involved in kinetochore-microtubule interaction and spindle checkpoint activity. [provided by RefSeq, Jul 2008]

GeneCards Summary for SPC25 Gene

SPC25 (SPC25 Component Of NDC80 Kinetochore Complex) is a Protein Coding gene. Diseases associated with SPC25 include Diffuse Idiopathic Skeletal Hyperostosis. Among its related pathways are Signaling by GPCR and Mitotic Prometaphase.

UniProtKB/Swiss-Prot Summary for SPC25 Gene

  • Acts as a component of the essential kinetochore-associated NDC80 complex, which is required for chromosome segregation and spindle checkpoint activity (PubMed:14699129, PubMed:14738735). Required for kinetochore integrity and the organization of stable microtubule binding sites in the outer plate of the kinetochore (PubMed:14738735, PubMed:14699129). The NDC80 complex synergistically enhances the affinity of the SKA1 complex for microtubules and may allow the NDC80 complex to track depolymerizing microtubules (PubMed:23085020).

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SPC25 Gene

Genomics for SPC25 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SPC25 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02J168889 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 250.3 +23.2 23170 2 CHD2 TBP SP1 MXD4 SIX5 NR2C1 MNT IKZF1 BRCA1 SMAD5 SPC25 PPIG RF00017-3348 G6PC2 NOSTRIN
GH02J168913 Promoter 1.1 Ensembl CraniofacialAtlas 250.7 +0.3 270 1 RXRA FOXA2 ZBTB33 JUND HNF4A RAD21 MAX SP1 REST CHAMP1 SPC25 G6PC2
GH02J168911 Enhancer 0.3 Ensembl 250.7 +1.5 1471 0.6 NFE2 SPC25 G6PC2
GH02J168935 Enhancer 1.2 Ensembl ENCODE 12.2 -22.9 -22874 1.9 TBP MNT IKZF1 IRF2 HES1 MBD2 BHLHE40 NONO ARNT ZNF395 SPC25 G6PC2 NOSTRIN HSALNG0020230 HSALNG0020228 ABCB11
GH02J168781 Enhancer 0.9 Ensembl ENCODE 10.3 +131.4 131370 3.2 CEBPA MCM7 FOXA2 RXRA ETV4 ZBTB33 SOX5 JUND HNF4A FOXA1 SPC25 NOSTRIN G6PC2 CERS6-AS1 piR-58297-269 CERS6
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SPC25 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SPC25

Top Transcription factor binding sites by QIAGEN in the SPC25 gene promoter:
  • CBF(2)
  • CBF-A
  • CBF-B
  • CBF-C
  • CP1A
  • CP1C
  • NF-Y
  • NF-YA
  • NF-YB
  • NF-YC

Genomic Locations for SPC25 Gene

Latest Assembly
chr2:168,834,132-168,913,371
(GRCh38/hg38)
Size:
79,240 bases
Orientation:
Minus strand

Previous Assembly
chr2:169,727,401-169,746,940
(GRCh37/hg19 by Entrez Gene)
Size:
19,540 bases
Orientation:
Minus strand

chr2:169,690,642-169,769,881
(GRCh37/hg19 by Ensembl)
Size:
79,240 bases
Orientation:
Minus strand

Genomic View for SPC25 Gene

Genes around SPC25 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SPC25 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SPC25 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SPC25 Gene

Proteins for SPC25 Gene

  • Protein details for SPC25 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9HBM1-SPC25_HUMAN
    Recommended name:
    Kinetochore protein Spc25
    Protein Accession:
    Q9HBM1
    Secondary Accessions:
    • A8K4X8
    • D3DPC0

    Protein attributes for SPC25 Gene

    Size:
    224 amino acids
    Molecular mass:
    26153 Da
    Quaternary structure:
    • Component of the NDC80 complex, which consists of NDC80/HEC1, CDCA1, SPBC24 and SPBC25. The NDC80 complex is formed by two subcomplexes composed of NDC80/HEC1-CDCA1 and SPBC24-SPBC25. Each subcomplex is formed by parallel interactions through the coiled-coil domains of individual subunits. Formation of a tetrameric complex is mediated by interactions between the C-terminal regions of both subunits of the NDC80/HEC1-CDCA1 subcomplex and the N-terminal regions of both subunits of the SPBC24-SPBC25 complex. The tetrameric NDC80 complex has an elongated rod-like structure with globular domains at either end.

    Three dimensional structures from OCA and Proteopedia for SPC25 Gene

neXtProt entry for SPC25 Gene

Post-translational modifications for SPC25 Gene

  • Ubiquitination at Lys19
  • Modification sites at PhosphoSitePlus

Other Protein References for SPC25 Gene

No data available for DME Specific Peptides for SPC25 Gene

Domains & Families for SPC25 Gene

Gene Families for SPC25 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SPC25 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SPC25 Gene

GenScript: Design optimal peptide antigens:
  • Kinetochore protein Spc25 (SPC25_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9HBM1

UniProtKB/Swiss-Prot:

SPC25_HUMAN :
  • Belongs to the SPC25 family.
Family:
  • Belongs to the SPC25 family.
genes like me logo Genes that share domains with SPC25: view

Function for SPC25 Gene

Molecular function for SPC25 Gene

UniProtKB/Swiss-Prot Function:
Acts as a component of the essential kinetochore-associated NDC80 complex, which is required for chromosome segregation and spindle checkpoint activity (PubMed:14699129, PubMed:14738735). Required for kinetochore integrity and the organization of stable microtubule binding sites in the outer plate of the kinetochore (PubMed:14738735, PubMed:14699129). The NDC80 complex synergistically enhances the affinity of the SKA1 complex for microtubules and may allow the NDC80 complex to track depolymerizing microtubules (PubMed:23085020).

Phenotypes From GWAS Catalog for SPC25 Gene

Gene Ontology (GO) - Molecular Function for SPC25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 14699129
genes like me logo Genes that share ontologies with SPC25: view
genes like me logo Genes that share phenotypes with SPC25: view

miRNA for SPC25 Gene

miRTarBase miRNAs that target SPC25

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SPC25

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SPC25 Gene

Localization for SPC25 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SPC25 Gene

Nucleus. Chromosome, centromere, kinetochore. Note=Localizes to kinetochores from late prophase to anaphase (PubMed:14738735). Localizes specifically to the outer plate of the kinetochore (PubMed:14738735, PubMed:14699129). {ECO:0000269 PubMed:14699129, ECO:0000269 PubMed:14738735}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SPC25 gene
Compartment Confidence
cytosol 5
nucleus 4
cytoskeleton 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SPC25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000775 chromosome, centromeric region IEA --
GO:0000776 kinetochore IEA --
GO:0000777 condensed chromosome kinetochore IBA,IDA 14699129
GO:0005634 nucleus IEA --
GO:0005694 chromosome IEA --
genes like me logo Genes that share ontologies with SPC25: view

Pathways & Interactions for SPC25 Gene

genes like me logo Genes that share pathways with SPC25: view

Pathways by source for SPC25 Gene

Gene Ontology (GO) - Biological Process for SPC25 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007049 cell cycle IEA --
GO:0007052 mitotic spindle organization IMP 14699129
GO:0007059 chromosome segregation IBA,IMP 14699129
GO:0051301 cell division IEA --
genes like me logo Genes that share ontologies with SPC25: view

No data available for SIGNOR curated interactions for SPC25 Gene

Drugs & Compounds for SPC25 Gene

No Compound Related Data Available

Transcripts for SPC25 Gene

mRNA/cDNA for SPC25 Gene

1 REFSEQ mRNAs :
5 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SPC25

Alternative Splicing Database (ASD) splice patterns (SP) for SPC25 Gene

No ASD Table

Relevant External Links for SPC25 Gene

GeneLoc Exon Structure for
SPC25

Expression for SPC25 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SPC25 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SPC25 Gene

This gene is overexpressed in Bone (50.4) and NK cells (8.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SPC25 Gene



Protein tissue co-expression partners for SPC25 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SPC25

SOURCE GeneReport for Unigene cluster for SPC25 Gene:

Hs.421956

Evidence on tissue expression from TISSUES for SPC25 Gene

  • Adrenal gland(4.1)
genes like me logo Genes that share expression patterns with SPC25: view

Primer products for research

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SPC25 Gene

Orthologs for SPC25 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SPC25 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SPC25 30 31
  • 99.55 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia SPC25 30 31
  • 91.67 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia SPC25 30 31
  • 88.39 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Spc25 30
  • 81.7 (n)
Mouse
(Mus musculus)
Mammalia Spc25 30 17 31
  • 80.95 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia SPC25 31
  • 67 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia SPC25 31
  • 62 (a)
OneToOne
Chicken
(Gallus gallus)
Aves SPC25 30 31
  • 62.16 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia SPC25 31
  • 29 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia spc25 30
  • 57.1 (n)
Zebrafish
(Danio rerio)
Actinopterygii spc25 30 31
  • 52.44 (n)
OneToOne
Species where no ortholog for SPC25 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for SPC25 Gene

ENSEMBL:
Gene Tree for SPC25 (if available)
TreeFam:
Gene Tree for SPC25 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SPC25: view image

Paralogs for SPC25 Gene

No data available for Paralogs for SPC25 Gene

Variants for SPC25 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SPC25 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for SPC25 Gene

Variant ID Type Subtype PubMed ID
esv999271 CNV insertion 20482838
nsv227 CNV insertion 15895083
nsv3023 CNV insertion 18451855
nsv480397 CNV novel sequence insertion 20440878
nsv583599 CNV gain 21841781

Variation tolerance for SPC25 Gene

Residual Variation Intolerance Score: 40.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.10; 38.33% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SPC25 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SPC25

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SPC25 Gene

Disorders for SPC25 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SPC25 Gene - From: COP

Disorder Aliases PubMed IDs
diffuse idiopathic skeletal hyperostosis
  • ankylosing vertebral hyperostosis
- elite association - COSMIC cancer census association via MalaCards
Search SPC25 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for SPC25

genes like me logo Genes that share disorders with SPC25: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SPC25 Gene

Publications for SPC25 Gene

  1. Architecture of the human ndc80-hec1 complex, a critical constituent of the outer kinetochore. (PMID: 15961401) Ciferri C … Musacchio A (The Journal of biological chemistry 2005) 2 3 4
  2. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier LW … Wilson RK (Nature 2005) 3 4
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  4. Identification of two novel components of the human NDC80 kinetochore complex. (PMID: 14699129) Bharadwaj R … Yu H (The Journal of biological chemistry 2004) 3 4
  5. The vertebrate Ndc80 complex contains Spc24 and Spc25 homologs, which are required to establish and maintain kinetochore-microtubule attachment. (PMID: 14738735) McCleland ML … Stukenberg PT (Current biology : CB 2004) 3 4

Products for SPC25 Gene

Sources for SPC25 Gene