Human Gene TTC4 (ENST00000371281.4_4) from GENCODE V47lift37
  Description: tetratricopeptide repeat domain 4, transcript variant 1 (from RefSeq NM_004623.5)
Gencode Transcript: ENST00000371281.4_4
Gencode Gene: ENSG00000243725.7_8
Transcript (Including UTRs)
   Position: hg19 chr1:55,181,534-55,208,330 Size: 26,797 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr1:55,181,582-55,207,186 Size: 25,605 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:55,181,534-55,208,330)mRNA (may differ from genome)Protein (387 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TTC4_HUMAN
DESCRIPTION: RecName: Full=Tetratricopeptide repeat protein 4; Short=TPR repeat protein 4;
SIMILARITY: Belongs to the TTC4 family.
SIMILARITY: Contains 3 TPR repeats.
SEQUENCE CAUTION: Sequence=AAD19853.1; Type=Frameshift; Positions=322;

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: TTC4
Diseases sorted by gene-association score: sporadic breast cancer (16)

-  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: 4.35 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 100.40 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 -21.5048-0.448 Picture PostScript Text
3' UTR -378.701144-0.331 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
IPR013026 - TPR-contain_dom
IPR011990 - TPR-like_helical
IPR019734 - TPR_repeat

Pfam Domains:
PF18972 - Cns1/TTC4 Wheel domain

SCOP Domains:
81901 - HCP-like
48439 - Protein prenylyltransferase
48452 - TPR-like

ModBase Predicted Comparative 3D Structure on O95801
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 orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Descriptions from all associated GenBank mRNAs
  BC028620 - Homo sapiens cDNA clone IMAGE:4822611, **** WARNING: chimeric clone ****.
CR749830 - Homo sapiens mRNA; cDNA DKFZp781B0622 (from clone DKFZp781B0622).
BX648088 - Homo sapiens mRNA; cDNA DKFZp686L2332 (from clone DKFZp686L2332).
AK127008 - Homo sapiens cDNA FLJ45063 fis, clone BRAWH3024231, highly similar to Tetratricopeptide repeat protein 4.
AK025524 - Homo sapiens cDNA: FLJ21871 fis, clone HEP02450, highly similar to AF073887 Homo sapiens tetratricopeptide repeat protein 4 (TTC4) mRNA.
AK292426 - Homo sapiens cDNA FLJ78741 complete cds, highly similar to Homo sapiens tetratricopeptide repeat domain 4 (TTC4), mRNA.
AF063602 - Homo sapiens brain my044 protein mRNA, complete cds.
AK090964 - Homo sapiens cDNA FLJ33645 fis, clone BRAMY2023863, highly similar to TETRATRICOPEPTIDE REPEAT PROTEIN 4.
AX746706 - Sequence 231 from Patent EP1308459.
AK222562 - Homo sapiens mRNA for tetratricopeptide repeat domain 4 variant, clone: CAE03627.
AF073887 - Homo sapiens tetratricopeptide repeat protein 4 (TTC4) mRNA, complete cds.
JD125894 - Sequence 106918 from Patent EP1572962.
BC001276 - Homo sapiens tetratricopeptide repeat domain 4, mRNA (cDNA clone MGC:5097 IMAGE:3462738), complete cds.
CU674642 - Synthetic construct Homo sapiens gateway clone IMAGE:100017149 5' read TTC4 mRNA.
BT006817 - Homo sapiens tetratricopeptide repeat domain 4 mRNA, complete cds.
KJ897712 - Synthetic construct Homo sapiens clone ccsbBroadEn_07106 TTC4 gene, encodes complete protein.
JD025645 - Sequence 6669 from Patent EP1572962.
JD033177 - Sequence 14201 from Patent EP1572962.
AK123924 - Homo sapiens cDNA FLJ41930 fis, clone PERIC2004379.
JD400722 - Sequence 381746 from Patent EP1572962.
JD525816 - Sequence 506840 from Patent EP1572962.
JD051189 - Sequence 32213 from Patent EP1572962.
JD071713 - Sequence 52737 from Patent EP1572962.
JD527927 - Sequence 508951 from Patent EP1572962.
JD451268 - Sequence 432292 from Patent EP1572962.
JD362112 - Sequence 343136 from Patent EP1572962.
JD272239 - Sequence 253263 from Patent EP1572962.
JD541590 - Sequence 522614 from Patent EP1572962.
JD133474 - Sequence 114498 from Patent EP1572962.
JD501514 - Sequence 482538 from Patent EP1572962.
JD301133 - Sequence 282157 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000371281.1, ENST00000371281.2, ENST00000371281.3, My044, NM_004623, O95801, Q53Y95, Q5TA96, Q9H3I2, TTC4_HUMAN, uc318jax.1, uc318jax.2
UCSC ID: ENST00000371281.4_4
RefSeq Accession: NM_004623.5
Protein: O95801 (aka TTC4_HUMAN)

-  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.