Human Gene TRAP1 (ENST00000246957.10_8) from GENCODE V47lift37
  Description: TNF receptor associated protein 1, transcript variant 1 (from RefSeq NM_016292.3)
Gencode Transcript: ENST00000246957.10_8
Gencode Gene: ENSG00000126602.11_12
Transcript (Including UTRs)
   Position: hg19 chr16:3,708,038-3,767,525 Size: 59,488 Total Exon Count: 18 Strand: -
Coding Region
   Position: hg19 chr16:3,708,130-3,767,509 Size: 59,380 Coding Exon Count: 18 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:3,708,038-3,767,525)mRNA (may differ from genome)Protein (704 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
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WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TRAP1_HUMAN
DESCRIPTION: RecName: Full=Heat shock protein 75 kDa, mitochondrial; Short=HSP 75; AltName: Full=TNFR-associated protein 1; AltName: Full=Tumor necrosis factor type 1 receptor-associated protein; Short=TRAP-1; Flags: Precursor;
FUNCTION: Chaperone that expresses an ATPase activity.
SUBUNIT: Binds to the intracellular domain of tumor necrosis factor type 1 receptor. Binds to RB1.
SUBCELLULAR LOCATION: Mitochondrion.
TISSUE SPECIFICITY: Found in skeletal muscle, liver, heart, brain, kidney, pancreas, lung and placenta.
SIMILARITY: Belongs to the heat shock protein 90 family.
SEQUENCE CAUTION: Sequence=AAA87704.1; Type=Frameshift; Positions=656;

-  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: TRAP1
Diseases sorted by gene-association score: cakut with or without vacterl* (100), vacterl association (9), brain glioblastoma multiforme (7)
* = Manually curated disease association

-  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: 39.31 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 751.97 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 -1.8016-0.112 Picture PostScript Text
3' UTR -19.8092-0.215 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
IPR003594 - ATPase-like_ATP-bd
IPR001404 - Hsp90
IPR020575 - Hsp90_N
IPR020568 - Ribosomal_S5_D2-typ_fold

Pfam Domains:
PF00183 - Hsp90 protein
PF02518 - Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
PF13589 - Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase

SCOP Domains:
55874 - ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
54211 - Ribosomal protein S5 domain 2-like
110942 - HSP90 C-terminal domain

ModBase Predicted Comparative 3D Structure on Q12931
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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 Gene Details  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003723 RNA binding
GO:0005164 tumor necrosis factor receptor binding
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0019901 protein kinase binding
GO:0051082 unfolded protein binding

Biological Process:
GO:0006457 protein folding
GO:0006950 response to stress
GO:0009386 translational attenuation
GO:0061077 chaperone-mediated protein folding
GO:1901856 negative regulation of cellular respiration
GO:1903427 negative regulation of reactive oxygen species biosynthetic process
GO:1903751 negative regulation of intrinsic apoptotic signaling pathway in response to hydrogen peroxide

Cellular Component:
GO:0005654 nucleoplasm
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0005758 mitochondrial intermembrane space
GO:0005759 mitochondrial matrix
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  LF210499 - JP 2014500723-A/18002: Polycomb-Associated Non-Coding RNAs.
AF043254 - Homo sapiens heat shock protein 75 (hsp75) mRNA, partial cds.
BC000406 - Homo sapiens cDNA clone IMAGE:2822999, containing frame-shift errors.
BC002994 - Homo sapiens cDNA clone IMAGE:2822999, containing frame-shift errors.
AF154108 - Homo sapiens tumor necrosis factor type 1 receptor associated protein mRNA, complete cds.
AK223049 - Homo sapiens mRNA for TNF receptor-associated protein 1 variant, clone: KAT00351.
AK223076 - Homo sapiens mRNA for TNF receptor-associated protein 1 variant, clone: KAT02071.
AK223205 - Homo sapiens mRNA for TNF receptor-associated protein 1 variant, clone: REC08044.
BC023585 - Homo sapiens TNF receptor-associated protein 1, mRNA (cDNA clone MGC:23363 IMAGE:4648083), complete cds.
HM005522 - Homo sapiens clone HTL-T-209 testicular tissue protein Li 209 mRNA, complete cds.
LF385091 - JP 2014500723-A/192594: Polycomb-Associated Non-Coding RNAs.
AJ890085 - Homo sapiens mRNA for TNF receptor-associated protein 1 (TRAP1 gene).
AK057620 - Homo sapiens cDNA FLJ33058 fis, clone TRACH1000181, highly similar to Heat shock protein 75 kDa, mitochondrial precursor.
AB209805 - Homo sapiens mRNA for TNF receptor-associated protein 1 variant protein.
AK299127 - Homo sapiens cDNA FLJ58608 complete cds, highly similar to Heat shock protein 75 kDa, mitochondrial precursor.
AK093344 - Homo sapiens cDNA FLJ36025 fis, clone TESTI2016701, highly similar to TUMOR NECROSIS FACTOR TYPE 1 RECEPTOR ASSOCIATED PROTEIN.
BC001455 - Homo sapiens TNF receptor-associated protein 1, mRNA (cDNA clone IMAGE:3138548), partial cds.
BC018950 - Homo sapiens TNF receptor-associated protein 1, mRNA (cDNA clone MGC:15157 IMAGE:4131231), complete cds.
U12595 - Human tumor necrosis factor type 1 receptor associated protein (TRAP1) mRNA, partial cds.
LF338301 - JP 2014500723-A/145804: Polycomb-Associated Non-Coding RNAs.
JD204039 - Sequence 185063 from Patent EP1572962.
JD437873 - Sequence 418897 from Patent EP1572962.
JX481354 - Homo sapiens TNF receptor-associated protein 1 (TRAP1) mRNA, partial cds.
DQ893476 - Synthetic construct clone IMAGE:100006106; FLH193502.01X; RZPDo839G1178D TNF receptor-associated protein 1 (TRAP1) gene, encodes complete protein.
DQ896346 - Synthetic construct Homo sapiens clone IMAGE:100010806; FLH193498.01L; RZPDo839G1168D TNF receptor-associated protein 1 (TRAP1) gene, encodes complete protein.
AB528744 - Synthetic construct DNA, clone: pF1KB9972, Homo sapiens TRAP1 gene for TNF receptor-associated protein 1, without stop codon, in Flexi system.
KJ892930 - Synthetic construct Homo sapiens clone ccsbBroadEn_02324 TRAP1 gene, encodes complete protein.
LF338302 - JP 2014500723-A/145805: Polycomb-Associated Non-Coding RNAs.
LF338306 - JP 2014500723-A/145809: Polycomb-Associated Non-Coding RNAs.
LF338307 - JP 2014500723-A/145810: Polycomb-Associated Non-Coding RNAs.
LF338308 - JP 2014500723-A/145811: Polycomb-Associated Non-Coding RNAs.
CU676340 - Synthetic construct Homo sapiens gateway clone IMAGE:100023301 5' read TRAP1 mRNA.
LF338310 - JP 2014500723-A/145813: Polycomb-Associated Non-Coding RNAs.
LF338311 - JP 2014500723-A/145814: Polycomb-Associated Non-Coding RNAs.
DL491737 - Novel nucleic acids.
MA620668 - JP 2018138019-A/192594: Polycomb-Associated Non-Coding RNAs.
MA446076 - JP 2018138019-A/18002: Polycomb-Associated Non-Coding RNAs.
MA573878 - JP 2018138019-A/145804: Polycomb-Associated Non-Coding RNAs.
MA573879 - JP 2018138019-A/145805: Polycomb-Associated Non-Coding RNAs.
MA573883 - JP 2018138019-A/145809: Polycomb-Associated Non-Coding RNAs.
MA573884 - JP 2018138019-A/145810: Polycomb-Associated Non-Coding RNAs.
MA573885 - JP 2018138019-A/145811: Polycomb-Associated Non-Coding RNAs.
MA573887 - JP 2018138019-A/145813: Polycomb-Associated Non-Coding RNAs.
MA573888 - JP 2018138019-A/145814: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B4DR68, D3DUC8, ENST00000246957.1, ENST00000246957.2, ENST00000246957.3, ENST00000246957.4, ENST00000246957.5, ENST00000246957.6, ENST00000246957.7, ENST00000246957.8, ENST00000246957.9, F5H897, HSP75, NM_016292, O43642, O75235, Q12931, Q9UHL5, TRAP1_HUMAN, uc317eut.1, uc317eut.2
UCSC ID: ENST00000246957.10_8
RefSeq Accession: NM_016292.3
Protein: Q12931 (aka TRAP1_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.