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thbs1b thrombospondin 1b [ Danio rerio (zebrafish) ]

Gene ID: 561901, updated on 19-Oct-2024

Summary

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Official Symbol
thbs1bprovided by ZNC
Official Full Name
thrombospondin 1bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-020708-1
See related
Ensembl:ENSDARG00000010785 AllianceGenome:ZFIN:ZDB-GENE-020708-1
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
Tsp-1; thbs1; wu:fc48c03; si:dkey-11e23.1
Summary
Predicted to enable calcium ion binding activity; extracellular matrix binding activity; and heparin binding activity. Predicted to be involved in negative regulation of angiogenesis. Predicted to act upstream of or within cell adhesion and inflammatory response. Predicted to be located in extracellular space. Predicted to be active in collagen-containing extracellular matrix. Is expressed in several structures, including axial vasculature; head mesenchyme; nervous system; pectoral fin; and somite. Human ortholog(s) of this gene implicated in cholangiocarcinoma; pancreatic cancer; and pancreatic ductal carcinoma. Orthologous to human THBS1 (thrombospondin 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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See thbs1b in Genome Data Viewer
Location:
chromosome: 20
Exon count:
23
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 20 NC_007131.7 (29038562..29051694, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 20 NC_007131.6 (29134741..29148827, complement)

Chromosome 20 - NC_007131.7Genomic Context describing neighboring genes Neighboring gene acyl-CoA thioesterase 21 Neighboring gene G protein-coupled receptor 176 Neighboring gene katanin p80 subunit B-like 1 Neighboring gene ER membrane protein complex subunit 7b

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Elongation factor ELL (Eleven-Nineteen Lysine-rich Leukemia) acts as a transcription factor for direct thrombospondin-1 regulation. Zhou J, et al. J Biol Chem, 2009 Jul 10. PMID 19447890, Free PMC Article
  2. Phylogenomic analysis of vertebrate thrombospondins reveals fish-specific paralogues, ancestral gene relationships and a tetrapod innovation. McKenzie P, et al. BMC Evol Biol, 2006 Apr 18. PMID 16620379, Free PMC Article
  3. Highly potent visnagin derivatives inhibit Cyp1 and prevent doxorubicin cardiotoxicity. Asnani A, et al. JCI Insight, 2018 Jan 11. PMID 29321375, Free PMC Article
  4. miR-430 regulates oriented cell division during neural tube development in zebrafish. Takacs CM, et al. Dev Biol, 2016 Jan 15. PMID 26658217
  5. Mutation in utp15 disrupts vascular patterning in a p53-dependent manner in zebrafish embryos. Mouillesseaux K, et al. PLoS One, 2011. PMID 21949834, Free PMC Article

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. ELL (Eleven-Nineteen Lysine-rich Leukemia) acts as a transcription factor for direct thrombospondin-1 regulation
    Title: Elongation factor ELL (Eleven-Nineteen Lysine-rich Leukemia) acts as a transcription factor for direct thrombospondin-1 regulation.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables heparin binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within cell adhesion IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of angiogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in collagen-containing extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
thrombospondin-1
Names
thrombospondin 1

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007131.7 Reference GRCz11 Primary Assembly

    Range
    29038562..29051694 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_685303.10 → XP_690395.4  thrombospondin-1 isoform X2

    UniProtKB/TrEMBL
    A0A8N7TB12, F1QEE7
    Related
    ENSDARP00000012255.8, ENSDART00000017090.10
    Conserved Domains (9) summary
    smart00209
    Location:495 → 547
    TSP1; Thrombospondin type 1 repeats
    sd00001
    Location:763 → 785
    TSP3; TSP3 repeat_short [structural motif]
    sd00002
    Location:787 → 821
    TSP3; TSP3 repeat_long [structural motif]
    sd00003
    Location:691 → 726
    TSP3_1C; TSP3 repeat_1C [structural motif]
    pfam00093
    Location:317 → 371
    VWC; von Willebrand factor type C domain
    pfam02412
    Location:846 → 882
    TSP_3; Thrombospondin type 3 repeat
    pfam05735
    Location:972 → 1169
    TSP_C; Thrombospondin C-terminal region
    pfam12947
    Location:650 → 689
    EGF_3; EGF domain
    cl22861
    Location:25 → 220
    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_005160762.5 → XP_005160819.1  thrombospondin-1 isoform X1

    UniProtKB/TrEMBL
    A0A8M2B7Q1, F1QL35
    Related
    ENSDARP00000120705.2, ENSDART00000140350.3
    Conserved Domains (9) summary
    smart00209
    Location:496 → 548
    TSP1; Thrombospondin type 1 repeats
    sd00001
    Location:764 → 786
    TSP3; TSP3 repeat_short [structural motif]
    sd00002
    Location:788 → 822
    TSP3; TSP3 repeat_long [structural motif]
    sd00003
    Location:692 → 727
    TSP3_1C; TSP3 repeat_1C [structural motif]
    pfam00093
    Location:318 → 372
    VWC; von Willebrand factor type C domain
    pfam02412
    Location:847 → 883
    TSP_3; Thrombospondin type 3 repeat
    pfam05735
    Location:973 → 1170
    TSP_C; Thrombospondin C-terminal region
    pfam12947
    Location:651 → 690
    EGF_3; EGF domain
    cl22861
    Location:25 → 220
    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 ...
Nucleotide Protein Strain
Heading Accession and Version

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