Human Gene TTC9C (ENST00000294161.10_1) from GENCODE V47lift37
  Description: tetratricopeptide repeat domain 9C (from HGNC TTC9C)
Gencode Transcript: ENST00000294161.10_1
Gencode Gene: ENSG00000162222.14_9
Transcript (Including UTRs)
   Position: hg19 chr11:62,495,584-62,503,715 Size: 8,132 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr11:62,496,321-62,500,600 Size: 4,280 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:62,495,584-62,503,715)mRNA (may differ from genome)Protein (82 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblExonPrimerGeneCardsHGNC
MGIPubMedUniProtKB

-  Comments and Description Text from UniProtKB
  ID: E7EST3_HUMAN
DESCRIPTION: SubName: Full=Tetratricopeptide repeat protein 9C;
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  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

+  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: 13.04 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 253.32 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -243.80651-0.375 Picture PostScript Text
3' UTR -297.40933-0.319 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
IPR023114 - Elongated_TPR_rpt_dom
IPR023566 - PPIase_FKBP

SCOP Domains:
48452 - TPR-like

ModBase Predicted Comparative 3D Structure on E7EST3
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 DetailsGene Details    
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-  Descriptions from all associated GenBank mRNAs
  AF289605 - Homo sapiens clone pp8376 unknown mRNA.
JD468759 - Sequence 449783 from Patent EP1572962.
BC032123 - Homo sapiens tetratricopeptide repeat domain 9C, mRNA (cDNA clone MGC:29649 IMAGE:4853202), complete cds.
JD363592 - Sequence 344616 from Patent EP1572962.
AF451992 - Homo sapiens chromosome 11 unknown mRNA.
AF451993 - Homo sapiens chromosome 6 unknown mRNA.
JD141237 - Sequence 122261 from Patent EP1572962.
JD115233 - Sequence 96257 from Patent EP1572962.
JD111599 - Sequence 92623 from Patent EP1572962.
JD506573 - Sequence 487597 from Patent EP1572962.
JD429934 - Sequence 410958 from Patent EP1572962.
BC053665 - Homo sapiens tetratricopeptide repeat domain 9C, mRNA (cDNA clone MGC:61569 IMAGE:6153096), complete cds.
JD327940 - Sequence 308964 from Patent EP1572962.
JD167783 - Sequence 148807 from Patent EP1572962.
HQ257916 - Synthetic construct Homo sapiens clone IMAGE:100072225 tetratricopeptide repeat domain 9C (TTC9C) (TTC9C) gene, encodes complete protein.
KJ900544 - Synthetic construct Homo sapiens clone ccsbBroadEn_09938 TTC9C gene, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: AF289605, E7EST3, E7EST3_HUMAN, ENST00000294161.1, ENST00000294161.2, ENST00000294161.3, ENST00000294161.4, ENST00000294161.5, ENST00000294161.6, ENST00000294161.7, ENST00000294161.8, ENST00000294161.9, TTC9C , uc317lgb.1
UCSC ID: ENST00000294161.10_1
RefSeq Accession: NM_001318814.2
Protein: E7EST3

-  Gene Model Information
  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.