Human Gene KRTAP10-9 (uc002zfp.4)
  Description: Homo sapiens keratin associated protein 10-9 (KRTAP10-9), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr21:46,047,040-46,048,295 Size: 1,256 Total Exon Count: 1 Strand: +
Coding Region
   Position: hg19 chr21:46,047,089-46,047,967 Size: 879 Coding Exon Count: 1 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr21:46,047,040-46,048,295)mRNA (may differ from genome)Protein (292 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkHGNCHPRDLynxMGIneXtProt
PubMedReactomeTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: KR109_HUMAN
DESCRIPTION: RecName: Full=Keratin-associated protein 10-9; AltName: Full=High sulfur keratin-associated protein 10.9; AltName: Full=Keratin-associated protein 10.9; AltName: Full=Keratin-associated protein 18-9; AltName: Full=Keratin-associated protein 18.9;
FUNCTION: In the hair cortex, hair keratin intermediate filaments are embedded in an interfilamentous matrix, consisting of hair keratin-associated proteins (KRTAP), which are essential for the formation of a rigid and resistant hair shaft through their extensive disulfide bond cross-linking with abundant cysteine residues of hair keratins. The matrix proteins include the high- sulfur and high-glycine-tyrosine keratins.
SUBUNIT: Interacts with hair keratins.
TISSUE SPECIFICITY: Restricted to a narrow region of the hair fiber cuticle, lying approximately 20 cell layers above the apex of the dermal papilla of the hair root; not detected in any other tissues.
SIMILARITY: Belongs to the KRTAP type 10 family.

-  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


+  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: 0.02 RPKM in Testis
Total median expression: 0.02 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 0.00490.000 Picture PostScript Text
3' UTR -123.60328-0.377 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
  InterPro Domains: Graphical view of domain structure
IPR002494 - Keratin-assoc

Pfam Domains:
PF13885 - Keratin, high sulfur B2 protein

ModBase Predicted Comparative 3D Structure on P60411
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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

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

Biological Process:
GO:0031424 keratinization

Cellular Component:
GO:0005829 cytosol
GO:0005882 intermediate filament
GO:0045095 keratin filament


-  Descriptions from all associated GenBank mRNAs
  AB076356 - Homo sapiens KRTAP18.9 mRNA for keratin associated protein, complete cds.
AB076357 - Homo sapiens KRTAP18.9s mRNA for spliced variant of keratin associated protein, partial cds.
BC131613 - Homo sapiens keratin associated protein 10-9, mRNA (cDNA clone MGC:149461 IMAGE:40115414), complete cds.
KJ900685 - Synthetic construct Homo sapiens clone ccsbBroadEn_10079 KRTAP10-9 gene, encodes complete protein.
AJ566386 - Homo sapiens partial mRNA for keratin associated protein KAP10.9 (KRTAP10-9 gene).

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P60411 (Reactome details) participates in the following event(s):

R-HSA-6805567 Keratinization
R-HSA-1266738 Developmental Biology

-  Other Names for This Gene
  Alternate Gene Symbols: A2RRG1, A6NIR9, KAP10.9, KAP18-9, KR109_HUMAN, KRTAP10.9, KRTAP18-9, KRTAP18.9, NM_198690, NP_941963, P60411, Q70LJ1
UCSC ID: uc002zfp.4
RefSeq Accession: NM_198690
Protein: P60411 (aka KR109_HUMAN or K109_HUMAN)
CCDS: CCDS42961.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_198690.2
exon count: 1CDS single in 3' UTR: no RNA size: 1276
ORF size: 879CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1927.00frame shift in genome: no % Coverage: 98.43
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.