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    THBS3 thrombospondin 3 [ Homo sapiens (human) ]

    Gene ID: 7059, updated on 27-Nov-2024

    Summary

    Official Symbol
    THBS3provided by HGNC
    Official Full Name
    thrombospondin 3provided by HGNC
    Primary source
    HGNC:HGNC:11787
    See related
    Ensembl:ENSG00000169231 MIM:188062; AllianceGenome:HGNC:11787
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TSP3
    Summary
    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]
    Annotation information
    Note: This gene has been reviewed for its involvement in coronavirus biology, and is locus in the vicinity of disease-associated variant(s).
    Expression
    Ubiquitous expression in endometrium (RPKM 9.2), gall bladder (RPKM 7.8) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See THBS3 in Genome Data Viewer
    Location:
    1q22
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (155195588..155209178, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (154334151..154347741, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (155165379..155178969, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene mucin 1, cell surface associated Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1397 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:155165957-155166792 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:155166793-155167628 Neighboring gene THBS3 antisense RNA 1 Neighboring gene microRNA 92b Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:155176689-155177472 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1398 Neighboring gene GBAP1 recombination region Neighboring gene metaxin 1 Neighboring gene glucosylceramidase beta 1 like, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:155196727-155197304 Neighboring gene GBA recombination region Neighboring gene metaxin 1 like, pseudogene

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp160, precursor env HIV-1 gp160 interacts with THBS3; predicted interaction to be relevant to viral egress at plasma membrane/extracellular matrix PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC119564, MGC119565

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables calcium ion binding NAS
    Non-traceable Author Statement
    more info
    PubMed 
    enables extracellular matrix structural constituent RCA
    inferred from Reviewed Computational Analysis
    more info
    PubMed 
    enables heparin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in bone trabecula formation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell-matrix adhesion NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in growth plate cartilage development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in ossification involved in bone maturation IEA
    Inferred from Electronic Annotation
    more info
     

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_047083.1 RefSeqGene

      Range
      6284..18593
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001252607.2NP_001239536.1  thrombospondin-3 isoform 2 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an in-frame exon in the coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.
      Source sequence(s)
      AC234582, AK314337, BC018786
      Consensus CDS
      CCDS72937.1
      UniProtKB/TrEMBL
      F5H4Z8, Q2HIZ0
      Related
      ENSP00000444792.2, ENST00000541576.5
      Conserved Domains (9) summary
      smart00210
      Location:23193
      TSPN; Thrombospondin N-terminal -like domains
      cd00054
      Location:307342
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      sd00001
      Location:519541
      TSP3; TSP3 repeat_short [structural motif]
      sd00002
      Location:542577
      TSP3; TSP3 repeat_long [structural motif]
      sd00003
      Location:449482
      TSP3_1C; TSP3 repeat_1C [structural motif]
      pfam02412
      Location:543577
      TSP_3; Thrombospondin type 3 repeat
      pfam05735
      Location:732929
      TSP_C; Thrombospondin C-terminal region
      pfam12947
      Location:369398
      EGF_3; EGF domain
      cd16079
      Location:218260
      TSP-3cc; Coiled coil region of thrombospondin-3 (TSP-3)
    2. NM_001252608.2NP_001239537.1  thrombospondin-3 isoform 3 precursor

      See identical proteins and their annotated locations for NP_001239537.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks two in-frame exons in the coding region, compared to variant 1. The encoded isoform (3) is shorter, compared to isoform 1.
      Source sequence(s)
      AK298592, BC018786
      Consensus CDS
      CCDS58034.1
      UniProtKB/TrEMBL
      Q2HIZ0
      Related
      ENSP00000392207.2, ENST00000457183.6
      Conserved Domains (9) summary
      cd00054
      Location:196231
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      sd00001
      Location:408430
      TSP3; TSP3 repeat_short [structural motif]
      sd00002
      Location:431466
      TSP3; TSP3 repeat_long [structural motif]
      sd00003
      Location:338371
      TSP3_1C; TSP3 repeat_1C [structural motif]
      pfam02412
      Location:432466
      TSP_3; Thrombospondin type 3 repeat
      pfam05735
      Location:621818
      TSP_C; Thrombospondin C-terminal region
      pfam12947
      Location:258287
      EGF_3; EGF domain
      cd16079
      Location:107149
      TSP-3cc; Coiled coil region of thrombospondin-3 (TSP-3)
      cl22861
      Location:23118
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    3. NM_001407487.1NP_001394416.1  thrombospondin-3 isoform 4 precursor

      Status: REVIEWED

      Source sequence(s)
      AC234582
    4. NM_001407488.1NP_001394417.1  thrombospondin-3 isoform 5 precursor

      Status: REVIEWED

      Source sequence(s)
      AC234582
    5. NM_001407490.1NP_001394419.1  thrombospondin-3 isoform 6

      Status: REVIEWED

      Source sequence(s)
      AC234582
    6. NM_001407554.1NP_001394483.1  thrombospondin-3 isoform 7 precursor

      Status: REVIEWED

      Source sequence(s)
      AC234582
    7. NM_001407555.1NP_001394484.1  thrombospondin-3 isoform 8 precursor

      Status: REVIEWED

      Source sequence(s)
      AC234582
    8. NM_001407556.1NP_001394485.1  thrombospondin-3 isoform 9

      Status: REVIEWED

      Source sequence(s)
      AC234582
    9. NM_001407557.1NP_001394486.1  thrombospondin-3 isoform 9

      Status: REVIEWED

      Source sequence(s)
      AC234582
    10. NM_001407558.1NP_001394487.1  thrombospondin-3 isoform 10

      Status: REVIEWED

      Source sequence(s)
      AC234582
    11. NM_001407559.1NP_001394488.1  thrombospondin-3 isoform 11

      Status: REVIEWED

      Source sequence(s)
      AC234582
    12. NM_001407560.1NP_001394489.1  thrombospondin-3 isoform 12

      Status: REVIEWED

      Source sequence(s)
      AC234582
    13. NM_001407561.1NP_001394490.1  thrombospondin-3 isoform 12

      Status: REVIEWED

      Source sequence(s)
      AC234582
    14. NM_001407562.1NP_001394491.1  thrombospondin-3 isoform 14

      Status: REVIEWED

      Source sequence(s)
      AC234582
    15. NM_007112.5NP_009043.1  thrombospondin-3 isoform 1 precursor

      See identical proteins and their annotated locations for NP_009043.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC234582, BC018786, L38969
      Consensus CDS
      CCDS1099.1
      UniProtKB/Swiss-Prot
      B1AVR8, B4DQ20, P49746, Q8WV34
      UniProtKB/TrEMBL
      Q2HIZ0
      Related
      ENSP00000357362.3, ENST00000368378.7
      Conserved Domains (9) summary
      smart00210
      Location:23193
      TSPN; Thrombospondin N-terminal -like domains
      cd00054
      Location:316351
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      sd00001
      Location:528550
      TSP3; TSP3 repeat_short [structural motif]
      sd00002
      Location:551586
      TSP3; TSP3 repeat_long [structural motif]
      sd00003
      Location:458491
      TSP3_1C; TSP3 repeat_1C [structural motif]
      pfam02412
      Location:552586
      TSP_3; Thrombospondin type 3 repeat
      pfam05735
      Location:741938
      TSP_C; Thrombospondin C-terminal region
      pfam12947
      Location:378407
      EGF_3; EGF domain
      cd16079
      Location:227269
      TSP-3cc; Coiled coil region of thrombospondin-3 (TSP-3)

    RNA

    1. NR_045553.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      BC018786, BC113846
      Related
      ENST00000541990.5
    2. NR_176392.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC234582
    3. NR_176393.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC234582

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      155195588..155209178 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011509931.2XP_011508233.1  thrombospondin-3 isoform X7

      See identical proteins and their annotated locations for XP_011508233.1

      UniProtKB/TrEMBL
      Q2HIZ0
      Conserved Domains (9) summary
      cd00054
      Location:278313
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      sd00001
      Location:490512
      TSP3; TSP3 repeat_short [structural motif]
      sd00002
      Location:513548
      TSP3; TSP3 repeat_long [structural motif]
      sd00003
      Location:420453
      TSP3_1C; TSP3 repeat_1C [structural motif]
      cd16079
      Location:189231
      TSP-3cc; Coiled coil region of thrombospondin-3 (TSP-3)
      pfam02412
      Location:513548
      TSP_3; Thrombospondin type 3 repeat
      pfam05735
      Location:706903
      TSP_C; Thrombospondin C-terminal region
      pfam12947
      Location:340369
      EGF_3; EGF domain
      cl22861
      Location:2155
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    2. XM_011509928.3XP_011508230.1  thrombospondin-3 isoform X4

      UniProtKB/TrEMBL
      Q2HIZ0
      Conserved Domains (9) summary
      cd00054
      Location:342377
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      sd00001
      Location:554576
      TSP3; TSP3 repeat_short [structural motif]
      sd00002
      Location:577612
      TSP3; TSP3 repeat_long [structural motif]
      sd00003
      Location:484517
      TSP3_1C; TSP3 repeat_1C [structural motif]
      pfam02412
      Location:578612
      TSP_3; Thrombospondin type 3 repeat
      pfam05735
      Location:770967
      TSP_C; Thrombospondin C-terminal region
      pfam12947
      Location:404433
      EGF_3; EGF domain
      cd16079
      Location:253295
      TSP-3cc; Coiled coil region of thrombospondin-3 (TSP-3)
      cl22861
      Location:51219
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    3. XM_047429292.1XP_047285248.1  thrombospondin-3 isoform X3

    4. XM_011509927.3XP_011508229.1  thrombospondin-3 isoform X2

      UniProtKB/TrEMBL
      Q2HIZ0
      Conserved Domains (9) summary
      cd00054
      Location:364399
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      sd00001
      Location:576598
      TSP3; TSP3 repeat_short [structural motif]
      sd00002
      Location:599634
      TSP3; TSP3 repeat_long [structural motif]
      sd00003
      Location:506539
      TSP3_1C; TSP3 repeat_1C [structural motif]
      pfam02412
      Location:600634
      TSP_3; Thrombospondin type 3 repeat
      pfam05735
      Location:792989
      TSP_C; Thrombospondin C-terminal region
      pfam12947
      Location:426455
      EGF_3; EGF domain
      cd16079
      Location:275317
      TSP-3cc; Coiled coil region of thrombospondin-3 (TSP-3)
      cl22861
      Location:85250
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    5. XM_047429301.1XP_047285257.1  thrombospondin-3 isoform X6

    6. XM_011509930.3XP_011508232.1  thrombospondin-3 isoform X5

      UniProtKB/TrEMBL
      Q2HIZ0
      Conserved Domains (9) summary
      cd00054
      Location:373408
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      sd00001
      Location:585607
      TSP3; TSP3 repeat_short [structural motif]
      sd00002
      Location:608643
      TSP3; TSP3 repeat_long [structural motif]
      sd00003
      Location:515548
      TSP3_1C; TSP3 repeat_1C [structural motif]
      pfam02412
      Location:609643
      TSP_3; Thrombospondin type 3 repeat
      pfam05735
      Location:801951
      TSP_C; Thrombospondin C-terminal region
      pfam12947
      Location:435464
      EGF_3; EGF domain
      cd16079
      Location:284326
      TSP-3cc; Coiled coil region of thrombospondin-3 (TSP-3)
      cl22861
      Location:85250
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    7. XM_011509926.3XP_011508228.1  thrombospondin-3 isoform X1

      UniProtKB/TrEMBL
      Q2HIZ0
      Conserved Domains (9) summary
      cd00054
      Location:373408
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      sd00001
      Location:585607
      TSP3; TSP3 repeat_short [structural motif]
      sd00002
      Location:608643
      TSP3; TSP3 repeat_long [structural motif]
      sd00003
      Location:515548
      TSP3_1C; TSP3 repeat_1C [structural motif]
      pfam02412
      Location:609643
      TSP_3; Thrombospondin type 3 repeat
      pfam05735
      Location:801998
      TSP_C; Thrombospondin C-terminal region
      pfam12947
      Location:435464
      EGF_3; EGF domain
      cd16079
      Location:284326
      TSP-3cc; Coiled coil region of thrombospondin-3 (TSP-3)
      cl22861
      Location:85250
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    8. XM_047429305.1XP_047285261.1  thrombospondin-3 isoform X7

    9. XM_011509932.3XP_011508234.1  thrombospondin-3 isoform X7

      See identical proteins and their annotated locations for XP_011508234.1

      UniProtKB/TrEMBL
      Q2HIZ0
      Conserved Domains (9) summary
      cd00054
      Location:278313
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      sd00001
      Location:490512
      TSP3; TSP3 repeat_short [structural motif]
      sd00002
      Location:513548
      TSP3; TSP3 repeat_long [structural motif]
      sd00003
      Location:420453
      TSP3_1C; TSP3 repeat_1C [structural motif]
      cd16079
      Location:189231
      TSP-3cc; Coiled coil region of thrombospondin-3 (TSP-3)
      pfam02412
      Location:513548
      TSP_3; Thrombospondin type 3 repeat
      pfam05735
      Location:706903
      TSP_C; Thrombospondin C-terminal region
      pfam12947
      Location:340369
      EGF_3; EGF domain
      cl22861
      Location:2155
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    10. XM_011509936.2XP_011508238.1  thrombospondin-3 isoform X9

      UniProtKB/TrEMBL
      B3KQE1
      Conserved Domains (8) summary
      smart00179
      Location:115149
      EGF_CA; Calcium-binding EGF-like domain
      cd00054
      Location:6196
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      sd00001
      Location:273295
      TSP3; TSP3 repeat_short [structural motif]
      sd00002
      Location:296331
      TSP3; TSP3 repeat_long [structural motif]
      sd00003
      Location:203236
      TSP3_1C; TSP3 repeat_1C [structural motif]
      pfam02412
      Location:296331
      TSP_3; Thrombospondin type 3 repeat
      NF000535
      Location:194424
      MSCRAMM_SdrC; MSCRAMM family adhesin SdrC
      cl13107
      Location:114
      TSPcc; Coiled coil region of thrombospondin
    11. XM_047429308.1XP_047285264.1  thrombospondin-3 isoform X8

    12. XM_047429322.1XP_047285278.1  thrombospondin-3 isoform X10

    13. XM_047429323.1XP_047285279.1  thrombospondin-3 isoform X11

    14. XM_047429324.1XP_047285280.1  thrombospondin-3 isoform X11

    15. XM_047429326.1XP_047285282.1  thrombospondin-3 isoform X12

    RNA

    1. XR_002957482.2 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      154334151..154347741 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054338541.1XP_054194516.1  thrombospondin-3 isoform X7

    2. XM_054338538.1XP_054194513.1  thrombospondin-3 isoform X2

    3. XM_054338540.1XP_054194515.1  thrombospondin-3 isoform X6

    4. XM_054338539.1XP_054194514.1  thrombospondin-3 isoform X5

    5. XM_054338537.1XP_054194512.1  thrombospondin-3 isoform X1

    6. XM_054338542.1XP_054194517.1  thrombospondin-3 isoform X7

    7. XM_054338544.1XP_054194519.1  thrombospondin-3 isoform X13

    8. XM_054338543.1XP_054194518.1  thrombospondin-3 isoform X7

    9. XM_054338546.1XP_054194521.1  thrombospondin-3 isoform X9

    10. XM_054338545.1XP_054194520.1  thrombospondin-3 isoform X8

    11. XM_054338547.1XP_054194522.1  thrombospondin-3 isoform X10

    12. XM_054338548.1XP_054194523.1  thrombospondin-3 isoform X11

    13. XM_054338549.1XP_054194524.1  thrombospondin-3 isoform X11

    14. XM_054338550.1XP_054194525.1  thrombospondin-3 isoform X12

    RNA

    1. XR_008486159.1 RNA Sequence