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Aliases for SKA3 Gene

Aliases for SKA3 Gene

  • Spindle And Kinetochore Associated Complex Subunit 3 2 3 5
  • C13orf3 3 4
  • RAMA1 3 4
  • Spindle And Kinetochore-Associated Protein 3 3
  • Chromosome 13 Open Reading Frame 3 2

External Ids for SKA3 Gene

Previous HGNC Symbols for SKA3 Gene

  • C13orf3

Previous GeneCards Identifiers for SKA3 Gene

  • GC13M020626
  • GC13M021728
  • GC13M002529

Summaries for SKA3 Gene

Entrez Gene Summary for SKA3 Gene

  • This gene encodes a component of the spindle and kinetochore-associated protein complex that regulates microtubule attachment to the kinetochores during mitosis. The encoded protein localizes to the outer kinetechore and may be required for normal chromosome segregation and cell division. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2009]

GeneCards Summary for SKA3 Gene

SKA3 (Spindle And Kinetochore Associated Complex Subunit 3) is a Protein Coding gene.

UniProtKB/Swiss-Prot for SKA3 Gene

  • Component of the SKA1 complex, a microtubule-binding subcomplex of the outer kinetochore that is essential for proper chromosome segregation (PubMed:19289083, PubMed:19360002, PubMed:23085020). The SKA1 complex is a direct component of the kinetochore-microtubule interface and directly associates with microtubules as oligomeric assemblies (PubMed:19289083, PubMed:19360002). The complex facilitates the processive movement of microspheres along a microtubule in a depolymerization-coupled manner (PubMed:19289083). In the complex, it mediates the microtubule-stimulated oligomerization (PubMed:19289083). Affinity for microtubules is synergistically enhanced in the presence of the ndc-80 complex and may allow the ndc-80 complex to track depolymerizing microtubules (PubMed:23085020).

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SKA3 Gene

Genomics for SKA3 Gene

Regulatory Elements for SKA3 Gene

Enhancers for SKA3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH13G021139 1.1 ENCODE 12.6 +36.1 36077 2.3 HDGF CREB3L1 ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9 SKA3 MRPL57 SAP18 GC13M021142
GH13G021038 1.3 Ensembl ENCODE dbSUPER 10.6 +136.7 136687 3.8 PKNOX1 JUN TAL1 TCF12 GATA2 NCOR1 NFE2 ETV6 FOS IKZF2 LATS2 LATS2-AS1 ENSG00000252128 SAP18 SKA3 MRPL57 CRYL1 RNU4-9P GC13M021039
GH13G021032 1.2 Ensembl ENCODE dbSUPER 10.6 +142.5 142521 3.0 CTCF HLF MAX CEBPB MNT FEZF1 NR3C1 RAD21 OSR2 ZNF316 LATS2 LATS2-AS1 SAP18 ENSG00000252128 SKA3 MRPL57 CRYL1 RNU4-9P GC13M021039
GH13G021217 1 ENCODE dbSUPER 12.3 -42.4 -42443 3.1 PKNOX1 EBF1 ZNF316 ARID3A ZNF366 EED RELB IKZF2 MAFK MTA2 SKA3 MRPL57 SAP18 ENSG00000271250 LINC01046
GH13G021296 1.1 ENCODE 10.8 -121.6 -121647 2.5 PKNOX1 FOXA2 CREB3L1 ARID4B SIN3A DMAP1 YY1 SLC30A9 ZNF143 ZNF207 SKA3 MRPL57 GRK6P1 LINC00539 MIPEPP3
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SKA3 on UCSC Golden Path with GeneCards custom track

Promoters for SKA3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000059761 102 2201 HDGF PKNOX1 CREB3L1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1

Genomic Location for SKA3 Gene

Chromosome:
13
Start:
21,153,595 bp from pter
End:
21,176,602 bp from pter
Size:
23,008 bases
Orientation:
Minus strand

Genomic View for SKA3 Gene

Genes around SKA3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SKA3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SKA3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SKA3 Gene

Proteins for SKA3 Gene

  • Protein details for SKA3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IX90-SKA3_HUMAN
    Recommended name:
    Spindle and kinetochore-associated protein 3
    Protein Accession:
    Q8IX90
    Secondary Accessions:
    • A2A330
    • A2A331
    • B2RBY2
    • Q5VZV5
    • Q86WR2
    • Q8NBG1
    • Q96D22

    Protein attributes for SKA3 Gene

    Size:
    412 amino acids
    Molecular mass:
    46359 Da
    Quaternary structure:
    • Component of the SKA1 complex, composed of SKA1, SKA2 and SKA3 (PubMed:19289083, PubMed:19360002). The core SKA1 complex is composed of 2 SKA1-SKA2 heterodimers, each heterodimer interacting with a molecule of the SKA3 homodimer (PubMed:19289083, PubMed:19360002). The core SKA1 complex associates with microtubules and forms oligomeric assemblies (PubMed:19289083, PubMed:19360002, PubMed:23085020). Interacts with SKA1; the interaction is direct (PubMed:19289083, PubMed:23085020).
    SequenceCaution:
    • Sequence=AAH13418.1; Type=Erroneous translation; Note=Wrong choice of frame.; Evidence={ECO:0000305}; Sequence=BAG37379.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAG37379.1; Type=Frameshift; Positions=29; Evidence={ECO:0000305}; Sequence=CAH69950.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=EAX08294.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SKA3 Gene

    Alternative splice isoforms for SKA3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SKA3 Gene

Post-translational modifications for SKA3 Gene

  • Glycosylation at Asn316
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SKA3 Gene

Domains & Families for SKA3 Gene

Protein Domains for SKA3 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SKA3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8IX90

UniProtKB/Swiss-Prot:

SKA3_HUMAN :
  • Belongs to the SKA3 family.
Family:
  • Belongs to the SKA3 family.
genes like me logo Genes that share domains with SKA3: view

No data available for Gene Families for SKA3 Gene

Function for SKA3 Gene

Molecular function for SKA3 Gene

UniProtKB/Swiss-Prot Function:
Component of the SKA1 complex, a microtubule-binding subcomplex of the outer kinetochore that is essential for proper chromosome segregation (PubMed:19289083, PubMed:19360002, PubMed:23085020). The SKA1 complex is a direct component of the kinetochore-microtubule interface and directly associates with microtubules as oligomeric assemblies (PubMed:19289083, PubMed:19360002). The complex facilitates the processive movement of microspheres along a microtubule in a depolymerization-coupled manner (PubMed:19289083). In the complex, it mediates the microtubule-stimulated oligomerization (PubMed:19289083). Affinity for microtubules is synergistically enhanced in the presence of the ndc-80 complex and may allow the ndc-80 complex to track depolymerizing microtubules (PubMed:23085020).

Gene Ontology (GO) - Molecular Function for SKA3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 19289083
genes like me logo Genes that share ontologies with SKA3: view
genes like me logo Genes that share phenotypes with SKA3: view

Animal Model Products

CRISPR Products

miRNA for SKA3 Gene

miRTarBase miRNAs that target SKA3

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for SKA3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SKA3 Gene

Localization for SKA3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SKA3 Gene

Cytoplasm, cytoskeleton, spindle. Chromosome, centromere, kinetochore. Note=Localizes to the outer kinetochore and spindle microtubules during mitosis in a NDC80 complex-dependent manner. {ECO:0000269 PubMed:19360002}.

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 SKA3 gene
Compartment Confidence
cytoskeleton 5
plasma membrane 3
cytosol 3
nucleus 2
mitochondrion 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for SKA3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000776 kinetochore IDA,IEA 20813266
GO:0000777 condensed chromosome kinetochore IEA --
GO:0000940 condensed chromosome outer kinetochore IDA,IEA 19289083
GO:0005694 chromosome IEA --
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with SKA3: view

Pathways & Interactions for SKA3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SKA3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000278 mitotic cell cycle IMP 19289083
GO:0007049 cell cycle IEA --
GO:0007059 chromosome segregation IMP,IEA 19289083
GO:0007067 mitotic nuclear division IMP --
GO:0031110 regulation of microtubule polymerization or depolymerization IDA 19289083
genes like me logo Genes that share ontologies with SKA3: view

No data available for Pathways by source and SIGNOR curated interactions for SKA3 Gene

Drugs & Compounds for SKA3 Gene

No Compound Related Data Available

Transcripts for SKA3 Gene

Unigene Clusters for SKA3 Gene

Spindle and kinetochore associated complex subunit 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for SKA3

Alternative Splicing Database (ASD) splice patterns (SP) for SKA3 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b · 9c
SP1: -
SP2: - -
SP3: - - - - - - -
SP4:

Relevant External Links for SKA3 Gene

GeneLoc Exon Structure for
SKA3
ECgene alternative splicing isoforms for
SKA3

Expression for SKA3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SKA3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SKA3 Gene

This gene is overexpressed in Testis (x6.7) and Esophagus - Mucosa (x4.1).

Protein differential expression in normal tissues from HIPED for SKA3 Gene

This gene is overexpressed in Fetal ovary (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SKA3 Gene



Protein tissue co-expression partners for SKA3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SKA3 Gene:

SKA3

SOURCE GeneReport for Unigene cluster for SKA3 Gene:

Hs.88523
genes like me logo Genes that share expression patterns with SKA3: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SKA3 Gene

Orthologs for SKA3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SKA3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SKA3 34 35
  • 99.55 (n)
dog
(Canis familiaris)
Mammalia SKA3 34 35
  • 85.76 (n)
cow
(Bos Taurus)
Mammalia SKA3 34 35
  • 84.92 (n)
mouse
(Mus musculus)
Mammalia Ska3 34 16 35
  • 76.01 (n)
rat
(Rattus norvegicus)
Mammalia Ska3 34
  • 74.88 (n)
oppossum
(Monodelphis domestica)
Mammalia SKA3 35
  • 49 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SKA3 35
  • 47 (a)
OneToOne
chicken
(Gallus gallus)
Aves SKA3 34 35
  • 55.01 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia ska3 34
  • 50.57 (n)
zebrafish
(Danio rerio)
Actinopterygii ska3 35
  • 20 (a)
OneToOne
Species where no ortholog for SKA3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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)
  • lizard (Anolis carolinensis)
  • 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 squirt (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 SKA3 Gene

ENSEMBL:
Gene Tree for SKA3 (if available)
TreeFam:
Gene Tree for SKA3 (if available)

Paralogs for SKA3 Gene

No data available for Paralogs for SKA3 Gene

Variants for SKA3 Gene

Sequence variations from dbSNP and Humsavar for SKA3 Gene

SNP ID Clin Chr 13 pos Sequence Context AA Info Type
rs1000055454 -- 21,174,738(+) ATTTT(A/T)AAAAA intron-variant, upstream-variant-2KB
rs1000202391 -- 21,155,000(+) AAAGC(A/G)TATTA utr-variant-3-prime
rs1000254243 -- 21,160,751(+) ATGCA(A/C)AAGGG intron-variant
rs1000368981 -- 21,167,813(+) GATGT(A/T)ACCAA intron-variant
rs1000426098 -- 21,173,776(+) TGCCT(A/C)GTTTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SKA3 Gene

Variant ID Type Subtype PubMed ID
dgv3077n54 CNV gain 21841781
dgv3078n54 CNV gain 21841781
dgv315n67 CNV gain 20364138
dgv316n67 CNV gain 20364138
dgv924n106 CNV deletion 24896259
dgv925n106 CNV deletion 24896259
dgv960e59 CNV duplication 20981092
esv1003302 CNV deletion 20482838
esv1007120 CNV deletion 20482838
esv1249925 CNV deletion 17803354
esv2175517 CNV deletion 18987734
esv28665 CNV gain 19812545
esv3250163 CNV deletion 24192839
esv32897 CNV loss 17666407
esv33455 CNV loss 17666407
esv3550140 CNV deletion 23714750
esv3550141 CNV deletion 23714750
esv3550142 CNV deletion 23714750
esv3631454 CNV loss 21293372
esv3631455 CNV loss 21293372
esv3631456 CNV loss 21293372
esv8341 CNV loss 19470904
esv997322 CNV loss 20482838
nsv1037082 CNV gain 25217958
nsv1069734 CNV deletion 25765185
nsv1078303 OTHER inversion 25765185
nsv1115634 CNV deletion 24896259
nsv1120002 CNV deletion 24896259
nsv1120003 CNV deletion 24896259
nsv1127312 CNV deletion 24896259
nsv1140246 OTHER inversion 24896259
nsv1148852 CNV deletion 26484159
nsv1149576 CNV deletion 26484159
nsv1151909 OTHER inversion 26484159
nsv1152114 CNV deletion 26484159
nsv1152124 CNV deletion 26484159
nsv512307 CNV loss 21212237
nsv561247 CNV gain 21841781
nsv561250 CNV gain 21841781
nsv561256 CNV loss 21841781
nsv64608 CNV deletion 16902084
nsv826585 CNV gain 20364138
nsv958085 CNV deletion 24416366

Variation tolerance for SKA3 Gene

Residual Variation Intolerance Score: 90.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.61; 78.17% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SKA3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SKA3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SKA3 Gene

Disorders for SKA3 Gene

Relevant External Links for SKA3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SKA3

No disorders were found for SKA3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SKA3 Gene

Publications for SKA3 Gene

  1. The human kinetochore Ska1 complex facilitates microtubule depolymerization-coupled motility. (PMID: 19289083) Welburn J.P.I. … Cheeseman I.M. (Dev. Cell 2009) 2 3 4 64
  2. Stable kinetochore-microtubule interactions depend on the Ska complex and its new component Ska3/C13Orf3. (PMID: 19360002) Gaitanos T.N. … Nigg E.A. (EMBO J. 2009) 2 3 4 64
  3. The protein composition of mitotic chromosomes determined using multiclassifier combinatorial proteomics. (PMID: 20813266) Ohta S. … Rappsilber J. (Cell 2010) 3 4 64
  4. Comparative profiling identifies C13orf3 as a component of the Ska complex required for mammalian cell division. (PMID: 19387489) Theis M. … Buchholz F. (EMBO J. 2009) 2 3 64
  5. Ska3 is required for spindle checkpoint silencing and the maintenance of chromosome cohesion in mitosis. (PMID: 19646878) Daum J.R. … Gorbsky G.J. (Curr. Biol. 2009) 2 3 64

Products for SKA3 Gene

  • Addgene plasmids for SKA3

Sources for SKA3 Gene

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