Human Gene KNSTRN (uc001zll.3)
  Description: Homo sapiens kinetochore-localized astrin/SPAG5 binding protein (KNSTRN), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr15:40,674,922-40,686,489 Size: 11,568 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg19 chr15:40,675,037-40,685,798 Size: 10,762 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:40,674,922-40,686,489)mRNA (may differ from genome)Protein (316 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SKAP_HUMAN
DESCRIPTION: RecName: Full=Small kinetochore-associated protein; Short=SKAP; AltName: Full=Kinetochore-localized astrin-binding protein; Short=Kinastrin; AltName: Full=TRAF4-associated factor 1;
FUNCTION: Essential component of the mitotic spindle required for faithful chromosome segregation and progression into anaphase. Promotes the metaphase-to-anaphase transition and is required for chromosome alignment, normal timing of sister chromatid segregation, and maintenance of spindle pole architecture. The astrin (SPAG5)-kinastrin (SKAP) complex promotes stable microtubule-kinetochore attachments.
SUBUNIT: Part of an astrin (SPAG5)-kinastrin (SKAP) complex containing SKAP, SPAG5, PLK1, DYNLL1 and SGOL2. Interacts with SPAG5. Directly binds to microtubules, although at relatively low affinity. Interacts with CENPE; this interaction greatly favors microtubule-binding.
SUBCELLULAR LOCATION: Nucleus. Chromosome, centromere, kinetochore. Cytoplasm, cytoskeleton, spindle pole. Note=Colocalizes with microtubules around centrosomes in prophase and with the mitotic spindle at prometaphase and metaphase. From late prometaphase to anaphase, is highly concentrated on kinetochores. Located at the kinetochore-microtubule interface. The astrin (SPAG5)-kinastrin (SKAP) complex localizes to the microtubule plus ends.
INDUCTION: Degraded at the end of mitosis. Down-regulated upon exposure to nitric oxide.
SEQUENCE CAUTION: Sequence=AAH04543.1; Type=Erroneous termination; Positions=174; Note=Translated as Glu; Sequence=AAH14060.1; Type=Erroneous termination; Positions=174; Note=Translated as Glu; Sequence=AAI07803.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  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: 43.12 RPKM in Testis
Total median expression: 232.87 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -25.90115-0.225 Picture PostScript Text
3' UTR -180.89691-0.262 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
  ModBase Predicted Comparative 3D Structure on Q9Y448
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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:0000070 mitotic sister chromatid segregation
GO:0007049 cell cycle
GO:0007051 spindle organization
GO:0007059 chromosome segregation
GO:0051301 cell division
GO:0051988 regulation of attachment of spindle microtubules to kinetochore

Cellular Component:
GO:0000775 chromosome, centromeric region
GO:0000776 kinetochore
GO:0000777 condensed chromosome kinetochore
GO:0000922 spindle pole
GO:0005634 nucleus
GO:0005694 chromosome
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0005874 microtubule
GO:0015630 microtubule cytoskeleton
GO:0035371 microtubule plus-end
GO:0072686 mitotic spindle


-  Descriptions from all associated GenBank mRNAs
  AK301887 - Homo sapiens cDNA FLJ57010 complete cds.
AK125765 - Homo sapiens cDNA FLJ43777 fis, clone TESTI2051177, highly similar to Homo sapiens TRAF4 associated factor 1.
LF383715 - JP 2014500723-A/191218: Polycomb-Associated Non-Coding RNAs.
JD092169 - Sequence 73193 from Patent EP1572962.
JD351203 - Sequence 332227 from Patent EP1572962.
JD478719 - Sequence 459743 from Patent EP1572962.
BC118559 - Homo sapiens chromosome 15 open reading frame 23, mRNA (cDNA clone MGC:141729 IMAGE:40023827), complete cds.
BC118639 - Homo sapiens chromosome 15 open reading frame 23, mRNA (cDNA clone MGC:141728 IMAGE:40023825), complete cds.
AY652615 - Homo sapiens HSD11 mRNA, complete cds.
KJ899901 - Synthetic construct Homo sapiens clone ccsbBroadEn_09295 C15orf23 gene, encodes complete protein.
BC045739 - Homo sapiens chromosome 15 open reading frame 23, mRNA (cDNA clone IMAGE:4838767), partial cds.
BC107802 - Homo sapiens chromosome 15 open reading frame 23, mRNA (cDNA clone IMAGE:4663980), partial cds.
U81002 - Homo sapiens TRAF4 associated factor 1 mRNA, partial cds.
AK027408 - Homo sapiens cDNA FLJ14502 fis, clone NT2RM1000244, highly similar to Homo sapiens TRAF4 associated factor 1 mRNA.
AK298156 - Homo sapiens cDNA FLJ55234 complete cds.
BC004543 - Homo sapiens chromosome 15 open reading frame 23, mRNA (cDNA clone IMAGE:3952251), partial cds.
BC014060 - Homo sapiens chromosome 15 open reading frame 23, mRNA (cDNA clone IMAGE:3929710), partial cds.
BC021124 - Homo sapiens chromosome 15 open reading frame 23, mRNA (cDNA clone IMAGE:3836347), partial cds.
BC064344 - Homo sapiens chromosome 15 open reading frame 23, mRNA (cDNA clone IMAGE:4425894), partial cds.
LF348802 - JP 2014500723-A/156305: Polycomb-Associated Non-Coding RNAs.
LF348805 - JP 2014500723-A/156308: Polycomb-Associated Non-Coding RNAs.
JD506869 - Sequence 487893 from Patent EP1572962.
JD302835 - Sequence 283859 from Patent EP1572962.
JD552041 - Sequence 533065 from Patent EP1572962.
JD377659 - Sequence 358683 from Patent EP1572962.
JD343906 - Sequence 324930 from Patent EP1572962.
JD091870 - Sequence 72894 from Patent EP1572962.
JD096800 - Sequence 77824 from Patent EP1572962.
MA619292 - JP 2018138019-A/191218: Polycomb-Associated Non-Coding RNAs.
MA584379 - JP 2018138019-A/156305: Polycomb-Associated Non-Coding RNAs.
MA584382 - JP 2018138019-A/156308: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B4DXA7, C15orf23, HSD11, NM_033286, NP_150628, Q147U5, Q32Q57, Q5ISJ0, Q6P2S5, Q6PJM0, Q86XB4, Q9Y448, SKAP, SKAP_HUMAN, TRAF4AF1
UCSC ID: uc001zll.3
RefSeq Accession: NM_033286
Protein: Q9Y448 (aka SKAP_HUMAN)
CCDS: CCDS42021.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_033286.3
exon count: 9CDS single in 3' UTR: no RNA size: 1763
ORF size: 951CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1973.00frame shift in genome: no % Coverage: 99.66
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.