Human Gene TTC9 (ENST00000256367.3) from GENCODE V44
  Description: Homo sapiens tetratricopeptide repeat domain 9 (TTC9), mRNA. (from RefSeq NM_015351)
RefSeq Summary (NM_015351): This gene encodes a protein that contains three tetratricopeptide repeats. The gene has been shown to be hormonally regulated in breast cancer cells and may play a role in cancer cell invasion and metastasis. [provided by RefSeq, Mar 2009].
Gencode Transcript: ENST00000256367.3
Gencode Gene: ENSG00000133985.3
Transcript (Including UTRs)
   Position: hg38 chr14:70,641,916-70,675,366 Size: 33,451 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg38 chr14:70,642,130-70,671,155 Size: 29,026 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:70,641,916-70,675,366)mRNA (may differ from genome)Protein (222 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TTC9A_HUMAN
DESCRIPTION: RecName: Full=Tetratricopeptide repeat protein 9A; Short=TPR repeat protein 9A;
SIMILARITY: Belongs to the TTC9 family.
SIMILARITY: Contains 3 TPR repeats.
SEQUENCE CAUTION: Sequence=AAH47950.1; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=BAA13216.1; 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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 34.88 RPKM in Esophagus - Mucosa
Total median expression: 176.20 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 -121.00214-0.565 Picture PostScript Text
3' UTR -1166.544211-0.277 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
IPR023566 - PPIase_FKBP
IPR001440 - TPR-1
IPR013026 - TPR-contain_dom
IPR011990 - TPR-like_helical
IPR019734 - TPR_repeat

Pfam Domains:
PF00515 - Tetratricopeptide repeat

ModBase Predicted Comparative 3D Structure on Q92623
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
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0060348 bone development


-  Descriptions from all associated GenBank mRNAs
  D86980 - Homo sapiens mRNA for KIAA0227 gene.
BC047950 - Homo sapiens tetratricopeptide repeat domain 9, mRNA (cDNA clone IMAGE:5763935), partial cds.
AB464295 - Synthetic construct DNA, clone: pF1KA0227, Homo sapiens TTC9 gene for tetratricopeptide repeat domain 9, without stop codon, in Flexi system.
BC160145 - Synthetic construct Homo sapiens clone IMAGE:100064177, MGC:193260 tetratricopeptide repeat domain 9 (TTC9) mRNA, encodes complete protein.
JD133177 - Sequence 114201 from Patent EP1572962.
JD152607 - Sequence 133631 from Patent EP1572962.
JD406118 - Sequence 387142 from Patent EP1572962.
JD138898 - Sequence 119922 from Patent EP1572962.
JD407360 - Sequence 388384 from Patent EP1572962.
JD133882 - Sequence 114906 from Patent EP1572962.
JD527656 - Sequence 508680 from Patent EP1572962.
JD226802 - Sequence 207826 from Patent EP1572962.
JD403850 - Sequence 384874 from Patent EP1572962.
JD464670 - Sequence 445694 from Patent EP1572962.
JD527232 - Sequence 508256 from Patent EP1572962.
JD137904 - Sequence 118928 from Patent EP1572962.
JD277469 - Sequence 258493 from Patent EP1572962.
JD438012 - Sequence 419036 from Patent EP1572962.
JD158485 - Sequence 139509 from Patent EP1572962.
JD521458 - Sequence 502482 from Patent EP1572962.
JD061769 - Sequence 42793 from Patent EP1572962.
JD103901 - Sequence 84925 from Patent EP1572962.
JD336662 - Sequence 317686 from Patent EP1572962.
JD115962 - Sequence 96986 from Patent EP1572962.
JD494600 - Sequence 475624 from Patent EP1572962.
JD166062 - Sequence 147086 from Patent EP1572962.
JD298377 - Sequence 279401 from Patent EP1572962.
JD086214 - Sequence 67238 from Patent EP1572962.
JD074225 - Sequence 55249 from Patent EP1572962.
JD170540 - Sequence 151564 from Patent EP1572962.
JD347142 - Sequence 328166 from Patent EP1572962.
JD174848 - Sequence 155872 from Patent EP1572962.
JD108475 - Sequence 89499 from Patent EP1572962.
JD268027 - Sequence 249051 from Patent EP1572962.
JD435724 - Sequence 416748 from Patent EP1572962.
JD187097 - Sequence 168121 from Patent EP1572962.
JD386605 - Sequence 367629 from Patent EP1572962.
JD132132 - Sequence 113156 from Patent EP1572962.
JD106753 - Sequence 87777 from Patent EP1572962.
JD222846 - Sequence 203870 from Patent EP1572962.
JD211976 - Sequence 193000 from Patent EP1572962.
JD510833 - Sequence 491857 from Patent EP1572962.
JD249104 - Sequence 230128 from Patent EP1572962.
JD328221 - Sequence 309245 from Patent EP1572962.
JD350499 - Sequence 331523 from Patent EP1572962.
JD305301 - Sequence 286325 from Patent EP1572962.
JD110705 - Sequence 91729 from Patent EP1572962.
JD525033 - Sequence 506057 from Patent EP1572962.
JD146680 - Sequence 127704 from Patent EP1572962.
JD363036 - Sequence 344060 from Patent EP1572962.
JD371764 - Sequence 352788 from Patent EP1572962.
JD513679 - Sequence 494703 from Patent EP1572962.
JD318794 - Sequence 299818 from Patent EP1572962.
JD116584 - Sequence 97608 from Patent EP1572962.
JD114386 - Sequence 95410 from Patent EP1572962.
JD287229 - Sequence 268253 from Patent EP1572962.
JD413208 - Sequence 394232 from Patent EP1572962.
JD413624 - Sequence 394648 from Patent EP1572962.
JD511204 - Sequence 492228 from Patent EP1572962.
JD548656 - Sequence 529680 from Patent EP1572962.
JD365627 - Sequence 346651 from Patent EP1572962.
JD170247 - Sequence 151271 from Patent EP1572962.
JD384422 - Sequence 365446 from Patent EP1572962.
JD503947 - Sequence 484971 from Patent EP1572962.
JD554978 - Sequence 536002 from Patent EP1572962.
JD487281 - Sequence 468305 from Patent EP1572962.
JD286235 - Sequence 267259 from Patent EP1572962.
JD164256 - Sequence 145280 from Patent EP1572962.
JD556061 - Sequence 537085 from Patent EP1572962.
JD134645 - Sequence 115669 from Patent EP1572962.
JD422843 - Sequence 403867 from Patent EP1572962.
JD090686 - Sequence 71710 from Patent EP1572962.
JD232120 - Sequence 213144 from Patent EP1572962.
JD170774 - Sequence 151798 from Patent EP1572962.
JD130343 - Sequence 111367 from Patent EP1572962.
JD297702 - Sequence 278726 from Patent EP1572962.
JD243637 - Sequence 224661 from Patent EP1572962.
JD363166 - Sequence 344190 from Patent EP1572962.
JD291934 - Sequence 272958 from Patent EP1572962.
JD243031 - Sequence 224055 from Patent EP1572962.
JD248899 - Sequence 229923 from Patent EP1572962.
JD313728 - Sequence 294752 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000256367.1, ENST00000256367.2, KIAA0227, NM_015351, Q86WT2, Q92623, TTC9A, TTC9A_HUMAN, uc001xmi.1, uc001xmi.2, uc001xmi.3
UCSC ID: ENST00000256367.3
RefSeq Accession: NM_015351
Protein: Q92623 (aka TTC9A_HUMAN)
CCDS: CCDS45132.1

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