Human Gene THBS3 (ENST00000368378.7) from GENCODE V44
  Description: Homo sapiens thrombospondin 3 (THBS3), transcript variant 1, mRNA. (from RefSeq NM_007112)
RefSeq Summary (NM_007112): The protein encoded by this gene belongs to the thrombospondin family. Thrombospondin family members are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions. This protein forms a pentameric molecule linked by a single disulfide bond. This gene shares a common promoter with metaxin 1. Alternate splicing results in coding and non-coding transcript variants. [provided by RefSeq, Nov 2011].
Gencode Transcript: ENST00000368378.7
Gencode Gene: ENSG00000169231.13
Transcript (Including UTRs)
   Position: hg38 chr1:155,195,588-155,207,897 Size: 12,310 Total Exon Count: 23 Strand: -
Coding Region
   Position: hg38 chr1:155,195,841-155,207,876 Size: 12,036 Coding Exon Count: 23 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:155,195,588-155,207,897)mRNA (may differ from genome)Protein (956 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TSP3_HUMAN
DESCRIPTION: RecName: Full=Thrombospondin-3; Flags: Precursor;
FUNCTION: Adhesive glycoprotein that mediates cell-to-cell and cell-to-matrix interactions. Can bind to fibrinogen, fibronectin, laminin and type V collagen.
SUBUNIT: Oligomer; disulfide-linked.
SIMILARITY: Belongs to the thrombospondin family.
SIMILARITY: Contains 3 EGF-like domains.
SIMILARITY: Contains 1 laminin G-like domain.
SIMILARITY: Contains 1 TSP C-terminal (TSPC) domain.
SIMILARITY: Contains 8 TSP type-3 repeats.

-  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


-  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: 34.99 RPKM in Uterus
Total median expression: 698.32 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 -3.7021-0.176 Picture PostScript Text
3' UTR -88.80253-0.351 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
IPR008985 - ConA-like_lec_gl_sf
IPR013320 - ConA-like_subgrp
IPR000742 - EG-like_dom
IPR001881 - EGF-like_Ca-bd
IPR013032 - EGF-like_CS
IPR018097 - EGF_Ca-bd_CS
IPR001791 - Laminin_G
IPR024665 - Thbs/COMP_coiled-coil
IPR003367 - Thrombospondin_3-like_rpt
IPR017897 - Thrombospondin_3_rpt
IPR008859 - Thrombospondin_C

Pfam Domains:
PF11598 - Cartilage oligomeric matrix protein
PF07645 - Calcium-binding EGF domain
PF02412 - Thrombospondin type 3 repeat
PF05735 - Thrombospondin C-terminal region

ModBase Predicted Comparative 3D Structure on P49746
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-  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 BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsemblEnsembl  
Protein SequenceProtein SequenceProtein SequenceProtein Sequence  
AlignmentAlignmentAlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005509 calcium ion binding
GO:0008201 heparin binding

Biological Process:
GO:0003417 growth plate cartilage development
GO:0007155 cell adhesion
GO:0007160 cell-matrix adhesion
GO:0030198 extracellular matrix organization
GO:0043931 ossification involved in bone maturation
GO:0060346 bone trabecula formation

Cellular Component:
GO:0005576 extracellular region
GO:0031012 extracellular matrix
GO:0048471 perinuclear region of cytoplasm


-  Descriptions from all associated GenBank mRNAs
  LF206178 - JP 2014500723-A/13681: Polycomb-Associated Non-Coding RNAs.
MA441755 - JP 2018138019-A/13681: Polycomb-Associated Non-Coding RNAs.
BC018786 - Homo sapiens, Similar to thrombospondin 3, clone IMAGE:4875844, mRNA, partial cds.
AK223278 - Homo sapiens mRNA for thrombospondin 3 precursor variant, clone: SYN03003.
AK298914 - Homo sapiens cDNA FLJ54128 complete cds, highly similar to Thrombospondin-3 precursor.
AK074796 - Homo sapiens cDNA FLJ90315 fis, clone NT2RP2001480, highly similar to Thrombospondin-3 precursor.
L38969 - Homo sapiens thrombospondin 3 (THBS3) mRNA, complete cds.
AK298592 - Homo sapiens cDNA FLJ60323 complete cds, highly similar to Thrombospondin-3 precursor.
JD515738 - Sequence 496762 from Patent EP1572962.
JD258099 - Sequence 239123 from Patent EP1572962.
BC113846 - Homo sapiens thrombospondin 3, mRNA (cDNA clone MGC:119565 IMAGE:40008346), complete cds.
BC113847 - Homo sapiens thrombospondin 3, mRNA (cDNA clone MGC:119564 IMAGE:40008343), complete cds.
JD233216 - Sequence 214240 from Patent EP1572962.
JD223752 - Sequence 204776 from Patent EP1572962.
AK314337 - Homo sapiens cDNA, FLJ95097.
KJ901793 - Synthetic construct Homo sapiens clone ccsbBroadEn_11187 THBS3 gene, encodes complete protein.
AK298803 - Homo sapiens cDNA FLJ59383 complete cds, highly similar to Thrombospondin-3 precursor.
LF352207 - JP 2014500723-A/159710: Polycomb-Associated Non-Coding RNAs.
MA587784 - JP 2018138019-A/159710: Polycomb-Associated Non-Coding RNAs.
LF352206 - JP 2014500723-A/159709: Polycomb-Associated Non-Coding RNAs.
MA587783 - JP 2018138019-A/159709: Polycomb-Associated Non-Coding RNAs.
LF352204 - JP 2014500723-A/159707: Polycomb-Associated Non-Coding RNAs.
MA587781 - JP 2018138019-A/159707: Polycomb-Associated Non-Coding RNAs.
LF352203 - JP 2014500723-A/159706: Polycomb-Associated Non-Coding RNAs.
MA587780 - JP 2018138019-A/159706: Polycomb-Associated Non-Coding RNAs.
LF352202 - JP 2014500723-A/159705: Polycomb-Associated Non-Coding RNAs.
MA587779 - JP 2018138019-A/159705: Polycomb-Associated Non-Coding RNAs.
AK311031 - Homo sapiens cDNA, FLJ18073.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04350 - TGF-beta signaling pathway
hsa04510 - Focal adhesion
hsa04512 - ECM-receptor interaction

Reactome (by CSHL, EBI, and GO)

Protein P49746 (Reactome details) participates in the following event(s):

R-HSA-382054 PDGF binds to extracellular matrix proteins
R-HSA-186797 Signaling by PDGF
R-HSA-9006934 Signaling by Receptor Tyrosine Kinases
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: B1AVR8, ENST00000368378.1, ENST00000368378.2, ENST00000368378.3, ENST00000368378.4, ENST00000368378.5, ENST00000368378.6, NM_007112, P49746, Q8WV34, TSP3, TSP3_HUMAN, uc001fix.1, uc001fix.2, uc001fix.3, uc001fix.4
UCSC ID: ENST00000368378.7
RefSeq Accession: NM_007112
Protein: P49746 (aka TSP3_HUMAN)
CCDS: CCDS1099.1, CCDS72937.1

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