Human Gene TFG (ENST00000490574.6) from GENCODE V44
  Description: Homo sapiens trafficking from ER to golgi regulator (TFG), transcript variant 2, mRNA. (from RefSeq NM_001007565)
RefSeq Summary (NM_001007565): There are several documented fusion oncoproteins encoded partially by this gene. This gene also participates in several oncogenic rearrangements resulting in anaplastic lymphoma and mixoid chondrosarcoma, and may play a role in the NF-kappaB pathway. Multiple transcript variants have been found for this gene. [provided by RefSeq, Sep 2010].
Gencode Transcript: ENST00000490574.6
Gencode Gene: ENSG00000114354.15
Transcript (Including UTRs)
   Position: hg38 chr3:100,709,295-100,748,964 Size: 39,670 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg38 chr3:100,713,686-100,748,531 Size: 34,846 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesGeneReviewsMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:100,709,295-100,748,964)mRNA (may differ from genome)Protein (400 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TFG_HUMAN
DESCRIPTION: RecName: Full=Protein TFG; AltName: Full=TRK-fused gene protein;
INTERACTION: O15162:PLSCR1; NbExp=2; IntAct=EBI-357061, EBI-740019;
TISSUE SPECIFICITY: Ubiquitous.
DISEASE: Defects in TFG are a cause of thyroid papillary carcinoma (TPC) [MIM:188550]. TPC is a common tumor of the thyroid that typically arises as an irregular, solid or cystic mass from otherwise normal thyroid tissue. Papillary carcinomas are malignant neoplasm characterized by the formation of numerous, irregular, finger-like projections of fibrous stroma that is covered with a surface layer of neoplastic epithelial cells. Note=A chromosomal aberration involving TFG is found in thyroid papillary carcinomas. Translocation t(1;3)(q21;q11) with NTRK1. The TFG sequence is fused to the 3'-end of NTRK1 generating the TRKT3 (TRK-T3) fusion transcript.
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org/Genes/TFGID281.html";

-  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: TFG
Diseases sorted by gene-association score: hereditary motor and sensory neuropathy, okinawa type* (1650), spastic paraplegia 57, autosomal recessive* (1636), spastic paraplegia 57* (529), autosomal dominant charcot-marie-tooth disease type 2 due to tfg mutation* (350), charcot-marie-tooth disease, type 2e* (188), chondrosarcoma, extraskeletal myxoid* (164), differentiated thyroid carcinoma* (106), chondrosarcoma (10), anaplastic large cell lymphoma (10), extraosseous chondrosarcoma (8), motor peripheral neuropathy (7), cellular schwannoma (6), thyroid cancer, nonmedullary, 1 (6), hereditary motor and sensory neuropathy, type iic (6), charcot-marie-tooth disease, type 1d (5), neuropathy (5), neuropathy, congenital hypomyelinating (4), charcot-marie-tooth disease, type 1c (4), charcot-marie-tooth disease (2)
* = 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: 28.66 RPKM in Cells - Cultured fibroblasts
Total median expression: 890.28 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 -60.50180-0.336 Picture PostScript Text
3' UTR -87.90433-0.203 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
IPR000270 - OPR_PB1

Pfam Domains:
PF00564 - PB1 domain

ModBase Predicted Comparative 3D Structure on Q92734
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 BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0042802 identical protein binding

Biological Process:
GO:0006888 ER to Golgi vesicle-mediated transport
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling
GO:0048208 COPII vesicle coating

Cellular Component:
GO:0000139 Golgi membrane
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005829 cytosol
GO:0070971 endoplasmic reticulum exit site


-  Descriptions from all associated GenBank mRNAs
  AK093456 - Homo sapiens cDNA FLJ36137 fis, clone TESTI2024844, highly similar to Protein TFG.
LF210631 - JP 2014500723-A/18134: Polycomb-Associated Non-Coding RNAs.
MA446208 - JP 2018138019-A/18134: Polycomb-Associated Non-Coding RNAs.
BC009241 - Homo sapiens TRK-fused gene, mRNA (cDNA clone MGC:3556 IMAGE:2962943), complete cds.
LF213806 - JP 2014500723-A/21309: Polycomb-Associated Non-Coding RNAs.
MA449383 - JP 2018138019-A/21309: Polycomb-Associated Non-Coding RNAs.
BC001483 - Homo sapiens TRK-fused gene, mRNA (cDNA clone MGC:1364 IMAGE:3507440), complete cds.
BC041600 - Homo sapiens TRK-fused gene, mRNA (cDNA clone MGC:52124 IMAGE:5458899), complete cds.
BC023599 - Homo sapiens TRK-fused gene, mRNA (cDNA clone MGC:23035 IMAGE:4555507), complete cds.
AB097041 - Homo sapiens mRNA for putative MAPK activating protein, complete cds, clone: PM17.
Y07968 - H.sapiens mRNA for TFG protein.
KJ906034 - Synthetic construct Homo sapiens clone ccsbBroadEn_15704 TFG gene, encodes complete protein.
DQ895389 - Synthetic construct Homo sapiens clone IMAGE:100009849; FLH183928.01L; RZPDo839A05143D TRK-fused gene (TFG) gene, encodes complete protein.
DQ892194 - Synthetic construct clone IMAGE:100004824; FLH183932.01X; RZPDo839A05144D TRK-fused gene (TFG) gene, encodes complete protein.
KJ893011 - Synthetic construct Homo sapiens clone ccsbBroadEn_02405 TFG gene, encodes complete protein.
AB590134 - Synthetic construct DNA, clone: pFN21AE1449, Homo sapiens TFG gene for TRK-fused gene, without stop codon, in Flexi system.
BT007428 - Homo sapiens TRK-fused gene mRNA, complete cds.
AB731569 - Homo sapiens TFG mRNA for TRK-fused gene protein isoform 3, complete cds.
AB731570 - Homo sapiens TFG mRNA for TRK-fused gene protein isoform 4, complete cds.
CR456781 - Homo sapiens full open reading frame cDNA clone RZPDo834F124D for gene TFG, TRK-fused gene; complete cds, incl. stopcodon.
AB097040 - Homo sapiens mRNA for putative MAPK activating protein, complete cds, clone: PM16.
LF339551 - JP 2014500723-A/147054: Polycomb-Associated Non-Coding RNAs.
MA575128 - JP 2018138019-A/147054: Polycomb-Associated Non-Coding RNAs.
AY532911 - Homo sapiens TFG-NR4A3 fusion protein (TFG-NR4A3 fusion) mRNA, partial cds.
AK123588 - Homo sapiens cDNA FLJ41594 fis, clone CTONG2023021, highly similar to H.sapiens mRNA for TFG protein.
JD021306 - Sequence 2330 from Patent EP1572962.
JD029485 - Sequence 10509 from Patent EP1572962.
AK127920 - Homo sapiens cDNA FLJ46027 fis, clone SPLEN2024922, highly similar to Homo sapiens TRK-fused gene (TFG).
LF339548 - JP 2014500723-A/147051: Polycomb-Associated Non-Coding RNAs.
MA575125 - JP 2018138019-A/147051: Polycomb-Associated Non-Coding RNAs.
JD022535 - Sequence 3559 from Patent EP1572962.
JD092698 - Sequence 73722 from Patent EP1572962.
JD530081 - Sequence 511105 from Patent EP1572962.
JD354537 - Sequence 335561 from Patent EP1572962.
JD410323 - Sequence 391347 from Patent EP1572962.
JD313016 - Sequence 294040 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa05200 - Pathways in cancer
hsa05216 - Thyroid cancer

Reactome (by CSHL, EBI, and GO)

Protein Q92734 (Reactome details) participates in the following event(s):

R-HSA-5694417 SEC16 complex binds SAR1B:GTP:SEC23:SEC24
R-HSA-203973 Vesicle budding
R-HSA-204008 SEC31:SEC13 and v-SNARE recruitment
R-HSA-204005 COPII-mediated vesicle transport
R-HSA-199977 ER to Golgi Anterograde Transport
R-HSA-199991 Membrane Trafficking
R-HSA-948021 Transport to the Golgi and subsequent modification
R-HSA-5653656 Vesicle-mediated transport
R-HSA-446203 Asparagine N-linked glycosylation
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: D3DN49, ENST00000490574.1, ENST00000490574.2, ENST00000490574.3, ENST00000490574.4, ENST00000490574.5, NM_001007565, Q15656, Q92734, Q969I2, TFG_HUMAN, uc003duf.1, uc003duf.2, uc003duf.3, uc003duf.4, uc003duf.5
UCSC ID: ENST00000490574.6
RefSeq Accession: NM_001007565
Protein: Q92734 (aka TFG_HUMAN)
CCDS: CCDS2939.1, CCDS56266.1

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene TFG:
hsp (Hereditary Spastic Paraplegia Overview)

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