Human Gene SKA3 (uc001unt.3) Description and Page Index
  Description: Homo sapiens spindle and kinetochore associated complex subunit 3 (SKA3), transcript variant 1, mRNA.
RefSeq Summary (NM_145061): 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].
Transcript (Including UTRs)
   Position: hg19 chr13:21,727,734-21,750,741 Size: 23,008 Total Exon Count: 9 Strand: -
Coding Region
   Position: hg19 chr13:21,729,289-21,750,616 Size: 21,328 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr13:21,727,734-21,750,741)mRNA (may differ from genome)Protein (412 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: SKA3_HUMAN
DESCRIPTION: RecName: Full=Spindle and kinetochore-associated protein 3;
FUNCTION: Component of the SKA1 complex, a microtubule-binding subcomplex of the outer kinetochore that is essential for proper chromosome segregation. The SKA1 complex is a direct component of the kinetochore-microtubule interface and directly associates with microtubules as oligomeric assemblies. The complex facilitates the processive movement of microspheres along a microtubule in a depolymerization-coupled manner. In the complex, it mediates the microtubule-stimulated oligomerization.
SUBUNIT: Component of the SKA1 complex, composed of SKA1, SKA2 and SKA3. The core SKA1 complex is composed of 2 SKA1-SKA2 heterodimers, each heterodimer interacting with a molecule of the SKA3 homodimer. The core SKA1 complex associates with microtubules and forms oligomeric assemblies. Interacts directly with SKA1.
SUBCELLULAR LOCATION: Cytoplasm, cytoskeleton, spindle. Chromosome, centromere, kinetochore. Note=Localizes to the outer kinetochore and spindle microtubules during mitosis in a NDC80 complex-dependent manner.
SIMILARITY: Belongs to the SKA3 family.
SEQUENCE CAUTION: Sequence=AAH13418.1; Type=Erroneous translation; Note=Wrong choice of frame; Sequence=BAG37379.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=BAG37379.1; Type=Frameshift; Positions=29; Sequence=CAH69950.1; Type=Erroneous gene model prediction; Sequence=EAX08294.1; Type=Erroneous gene model prediction;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 9.06 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 24.85 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -50.40125-0.403 Picture PostScript Text
3' UTR -432.071555-0.278 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  Protein Data Bank (PDB) 3-D Structure
MuPIT help

4AJ5
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q8IX90
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
 Protein SequenceProtein Sequence   
 AlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0000278 mitotic cell cycle
GO:0007049 cell cycle
GO:0007059 chromosome segregation
GO:0031110 regulation of microtubule polymerization or depolymerization
GO:0051301 cell division

Cellular Component:
GO:0000775 chromosome, centromeric region
GO:0000776 kinetochore
GO:0000777 condensed chromosome kinetochore
GO:0000940 condensed chromosome outer kinetochore
GO:0005694 chromosome
GO:0005737 cytoplasm
GO:0005819 spindle
GO:0005856 cytoskeleton
GO:0005874 microtubule
GO:0005876 spindle microtubule


-  Descriptions from all associated GenBank mRNAs
  AF361358 - Homo sapiens RAMA1 (RAMA1) mRNA, complete cds.
BC013418 - Homo sapiens chromosome 13 open reading frame 3, mRNA (cDNA clone MGC:4832 IMAGE:3604003), complete cds.
JD175415 - Sequence 156439 from Patent EP1572962.
JD205177 - Sequence 186201 from Patent EP1572962.
JD339661 - Sequence 320685 from Patent EP1572962.
JD170815 - Sequence 151839 from Patent EP1572962.
JD530551 - Sequence 511575 from Patent EP1572962.
JD158280 - Sequence 139304 from Patent EP1572962.
JD361730 - Sequence 342754 from Patent EP1572962.
JD380842 - Sequence 361866 from Patent EP1572962.
JD449116 - Sequence 430140 from Patent EP1572962.
JD082428 - Sequence 63452 from Patent EP1572962.
JD466966 - Sequence 447990 from Patent EP1572962.
BC048988 - Homo sapiens chromosome 13 open reading frame 3, mRNA (cDNA clone MGC:57410 IMAGE:5267965), complete cds.
JD246024 - Sequence 227048 from Patent EP1572962.
JD246023 - Sequence 227047 from Patent EP1572962.
JD239896 - Sequence 220920 from Patent EP1572962.
AK090584 - Homo sapiens cDNA FLJ33265 fis, clone ASTRO2006920.
AX746521 - Sequence 46 from Patent EP1308459.
JD435830 - Sequence 416854 from Patent EP1572962.
JD056903 - Sequence 37927 from Patent EP1572962.
JD421789 - Sequence 402813 from Patent EP1572962.
JD418166 - Sequence 399190 from Patent EP1572962.
JD132554 - Sequence 113578 from Patent EP1572962.
JD235005 - Sequence 216029 from Patent EP1572962.
JD468263 - Sequence 449287 from Patent EP1572962.
JD109658 - Sequence 90682 from Patent EP1572962.
JD073338 - Sequence 54362 from Patent EP1572962.
JD056447 - Sequence 37471 from Patent EP1572962.
JD241536 - Sequence 222560 from Patent EP1572962.
JD465458 - Sequence 446482 from Patent EP1572962.
JD334717 - Sequence 315741 from Patent EP1572962.
JD328901 - Sequence 309925 from Patent EP1572962.
JD479752 - Sequence 460776 from Patent EP1572962.
JD092246 - Sequence 73270 from Patent EP1572962.
JD562746 - Sequence 543770 from Patent EP1572962.
JD528907 - Sequence 509931 from Patent EP1572962.
HQ447993 - Synthetic construct Homo sapiens clone IMAGE:100071362; CCSB010761_02 chromosome 13 open reading frame 3 (C13orf3) gene, encodes complete protein.
KJ900473 - Synthetic construct Homo sapiens clone ccsbBroadEn_09867 SKA3 gene, encodes complete protein.
AK314864 - Homo sapiens cDNA, FLJ95763.
KJ906460 - Synthetic construct Homo sapiens clone ccsbBroadEn_16130 SKA3 gene, encodes complete protein.
AK307976 - Homo sapiens cDNA, FLJ97924.
CU690596 - Synthetic construct Homo sapiens gateway clone IMAGE:100020885 5' read C13orf3 mRNA.
LF384995 - JP 2014500723-A/192498: Polycomb-Associated Non-Coding RNAs.
JD382997 - Sequence 364021 from Patent EP1572962.
JD196051 - Sequence 177075 from Patent EP1572962.
JD281503 - Sequence 262527 from Patent EP1572962.
MA620572 - JP 2018138019-A/192498: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A2A330, A2A331, B2RBY2, C13orf3, NM_145061, NP_659498, Q5VZV5, Q86WR2, Q8IX90, Q8NBG1, Q96D22, RAMA1, SKA3_HUMAN
UCSC ID: uc001unt.3
RefSeq Accession: NM_145061
Protein: Q8IX90 (aka SKA3_HUMAN)
CCDS: CCDS31946.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_145061.5
exon count: 9CDS single in 3' UTR: no RNA size: 2927
ORF size: 1239CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2678.00frame shift in genome: no % Coverage: 99.73
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.