Human Gene TPM4 (ENST00000643579.2_7) from GENCODE V47lift37
  Description: tropomyosin 4, transcript variant 1 (from RefSeq NM_003290.3)
Gencode Transcript: ENST00000643579.2_7
Gencode Gene: ENSG00000167460.18_21
Transcript (Including UTRs)
   Position: hg19 chr19:16,187,305-16,213,812 Size: 26,508 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chr19:16,187,376-16,212,156 Size: 24,781 Coding Exon Count: 8 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
Microarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:16,187,305-16,213,812)mRNA (may differ from genome)Protein (248 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -24.2071-0.341 Picture PostScript Text
3' UTR -456.901656-0.276 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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  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.
JD458065 - Sequence 439089 from Patent EP1572962.
JD133091 - Sequence 114115 from Patent EP1572962.
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.
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.
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.
JD556295 - Sequence 537319 from Patent EP1572962.
JD522248 - Sequence 503272 from Patent EP1572962.
JD441379 - Sequence 422403 from Patent EP1572962.
JD329029 - Sequence 310053 from Patent EP1572962.
JD319177 - Sequence 300201 from Patent EP1572962.
JD319178 - Sequence 300202 from Patent EP1572962.
JD383275 - Sequence 364299 from Patent EP1572962.
JD383276 - Sequence 364300 from Patent EP1572962.
JD370976 - Sequence 352000 from Patent EP1572962.
JD111733 - Sequence 92757 from Patent EP1572962.
JD178674 - Sequence 159698 from Patent EP1572962.
JD523738 - Sequence 504762 from Patent EP1572962.
JD430128 - Sequence 411152 from Patent EP1572962.
JD169182 - Sequence 150206 from Patent EP1572962.
JD041218 - Sequence 22242 from Patent EP1572962.
JD320965 - Sequence 301989 from Patent EP1572962.
JD387950 - Sequence 368974 from Patent EP1572962.
JD387951 - Sequence 368975 from Patent EP1572962.
JD387952 - Sequence 368976 from Patent EP1572962.
JD118043 - Sequence 99067 from Patent EP1572962.
JD156473 - Sequence 137497 from Patent EP1572962.
JD182287 - Sequence 163311 from Patent EP1572962.
JD349972 - Sequence 330996 from Patent EP1572962.
JD510432 - Sequence 491456 from Patent EP1572962.
JD351527 - Sequence 332551 from Patent EP1572962.
JD522703 - Sequence 503727 from Patent EP1572962.
JD139752 - Sequence 120776 from Patent EP1572962.
JD451396 - Sequence 432420 from Patent EP1572962.
JD364187 - Sequence 345211 from Patent EP1572962.
JD106381 - Sequence 87405 from Patent EP1572962.
JD336627 - Sequence 317651 from Patent EP1572962.
JD140421 - Sequence 121445 from Patent EP1572962.
JD518110 - Sequence 499134 from Patent EP1572962.
JD518111 - Sequence 499135 from Patent EP1572962.
JD106098 - Sequence 87122 from Patent EP1572962.
MA608343 - JP 2018138019-A/180269: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000643579.1, HEL-S-108 , NM_003290, uc328juh.1, uc328juh.2, V9HW56, V9HW56_HUMAN
UCSC ID: ENST00000643579.2_7
RefSeq Accession: NM_003290.3

-  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.