Human Gene TPM4 (ENST00000344824.11) from GENCODE V44
  Description: tropomyosin 4 (from HGNC TPM4)
RefSeq Summary (NM_003290): This gene encodes a member of the tropomyosin family of actin-binding proteins involved in the contractile system of striated and smooth muscles and the cytoskeleton of non-muscle cells. Tropomyosins are dimers of coiled-coil proteins that polymerize end-to-end along the major groove in most actin filaments. They provide stability to the filaments and regulate access of other actin-binding proteins. In muscle cells, they regulate muscle contraction by controlling the binding of myosin heads to the actin filament. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Nov 2009].
Gencode Transcript: ENST00000344824.11
Gencode Gene: ENSG00000167460.17
Transcript (Including UTRs)
   Position: hg38 chr19:16,079,502-16,102,149 Size: 22,648 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg38 chr19:16,086,427-16,101,346 Size: 14,920 Coding Exon Count: 6 

Page IndexSequence and LinksPrimersMalaCardsCTDRNA-Seq Expression
Microarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsPathwaysOther Names
Methods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:16,079,502-16,102,149)mRNA (may differ from genome)Protein (158 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGencodeGeneCardsHGNC
LynxMalacardsMGIPubMedUniProtKBWikipedia

-  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: TPM4
Diseases sorted by gene-association score: inflammatory myofibroblastic tumor* (145), autosomal dominant macrothrombocytopenia* (143), mesenchymal cell neoplasm (5)
* = Manually curated disease association

-  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: 355.74 RPKM in Cells - Cultured fibroblasts
Total median expression: 4208.82 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 -362.101079-0.336 Picture PostScript Text
3' UTR -222.60803-0.277 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.

-  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 BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Descriptions from all associated GenBank mRNAs
  AK023385 - Homo sapiens cDNA FLJ13323 fis, clone OVARC1001731, highly similar to TROPOMYOSIN ALPHA CHAIN, FIBROBLAST ISOFORM F2.
BC037576 - Homo sapiens tropomyosin 4, mRNA (cDNA clone MGC:45298 IMAGE:5582453), complete cds.
AK307538 - Homo sapiens cDNA, FLJ97486.
AK300136 - Homo sapiens cDNA FLJ52936 complete cds, weakly similar to Tropomyosin alpha-4 chain.
AK301285 - Homo sapiens cDNA FLJ54184 complete cds, highly similar to Tropomyosin alpha-4 chain.
BC067225 - Homo sapiens tropomyosin 4, mRNA (cDNA clone MGC:72041 IMAGE:4772340), complete cds.
FJ224305 - Homo sapiens epididymis secretory protein Li 108 (HEL-S-108) mRNA, complete cds.
X05276 - Human mRNA for fibroblast tropomyosin TM30 (pl).
BC002827 - Homo sapiens tropomyosin 4, mRNA (cDNA clone MGC:3641 IMAGE:3637300), complete cds.
AK315076 - Homo sapiens cDNA, FLJ96030, Homo sapiens tropomyosin 4 (TPM4), mRNA.
AF310722 - Homo sapiens tropomyosin 4-anaplastic lymphoma kinase fusion protein (TPM4-ALK) mRNA, partial cds.
AF186109 - Homo sapiens TPM4-ALK fusion oncoprotein type 2 (TPM4-ALK fusion) mRNA, partial cds.
KJ892310 - Synthetic construct Homo sapiens clone ccsbBroadEn_01704 TPM4 gene, encodes complete protein.
KJ897698 - Synthetic construct Homo sapiens clone ccsbBroadEn_07092 TPM4 gene, encodes complete protein.
BT019634 - Homo sapiens tropomyosin 4 mRNA, complete cds.
AK096732 - Homo sapiens cDNA FLJ39413 fis, clone PLACE6015729.
AF186110 - Homo sapiens TPM4-ALK fusion oncoprotein type 1 (TPM4-ALK fusion) mRNA, partial cds.
LF372766 - JP 2014500723-A/180269: Polycomb-Associated Non-Coding RNAs.
MA608343 - JP 2018138019-A/180269: Polycomb-Associated Non-Coding RNAs.
JD310916 - Sequence 291940 from Patent EP1572962.
JD449090 - Sequence 430114 from Patent EP1572962.
M12127 - Human cytoskeletal tropomyosin isoform (3.0 kb) mRNA, 3' end.
AF362887 - Homo sapiens tropomyosin 4-anaplastic lymphoma kinase fusion protein minor isoform mRNA, partial cds.
JD330579 - Sequence 311603 from Patent EP1572962.
AK125191 - Homo sapiens cDNA FLJ43201 fis, clone FEBRA2007823.
AK095546 - Homo sapiens cDNA FLJ38227 fis, clone FCBBF2004090.
JD327039 - Sequence 308063 from Patent EP1572962.
JD039862 - Sequence 20886 from Patent EP1572962.
JD039863 - Sequence 20887 from Patent EP1572962.
JD262812 - Sequence 243836 from Patent EP1572962.
JD289981 - Sequence 271005 from Patent EP1572962.
JD187844 - Sequence 168868 from Patent EP1572962.
JD165368 - Sequence 146392 from Patent EP1572962.
JD224026 - Sequence 205050 from Patent EP1572962.
JD350537 - Sequence 331561 from Patent EP1572962.
U02060 - Human clone 3 Alu repeat sequence.
JD179455 - Sequence 160479 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04260 - Cardiac muscle contraction
hsa05410 - Hypertrophic cardiomyopathy (HCM)
hsa05414 - Dilated cardiomyopathy

-  Other Names for This Gene
  Alternate Gene Symbols: A0A5F9UN72, BC067225, ENST00000344824.1, ENST00000344824.10, ENST00000344824.2, ENST00000344824.3, ENST00000344824.4, ENST00000344824.5, ENST00000344824.6, ENST00000344824.7, ENST00000344824.8, ENST00000344824.9, uc002ndi.1, uc002ndi.2, uc002ndi.3, uc002ndi.4
UCSC ID: ENST00000344824.11
RefSeq Accession: NM_003290

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