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    spon1b spondin 1b [ Danio rerio (zebrafish) ]

    Gene ID: 58029, updated on 27-Mar-2024

    Summary

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    Official Symbol
    spon1bprovided by ZNC
    Official Full Name
    spondin 1bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-000427-10
    See related
    Ensembl:ENSDARG00000023694 AllianceGenome:ZFIN:ZDB-GENE-000427-10
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    cb1051; F-spondin2
    Summary
    Predicted to enable metal ion binding activity. Predicted to be involved in cell adhesion. Located in extracellular region. Is expressed in several structures, including axis; central nervous system; eye; mesoderm; and pancreatic system. Orthologous to human SPON1 (spondin 1). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    Location:
    chromosome: 25
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 25 NC_007136.7 (15647697..15800834)
    105 previous assembly GRCz10 (GCF_000002035.5) 25 NC_007136.6 (15551294..15704434)

    Chromosome 25 - NC_007136.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC103909832 Neighboring gene uncharacterized LOC110438405 Neighboring gene synaptotagmin IXb Neighboring gene olfactomedin-like 1

    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
    • 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. Photoporation of biomolecules into single cells in living vertebrate embryos induced by a femtosecond laser amplifier. Hosokawa Y, et al. PLoS One, 2011. PMID 22110717, Free PMC Article
    2. F-spondin/spon1b expression patterns in developing and adult zebrafish. Akle V, et al. PLoS One, 2012. PMID 22768035, Free PMC Article
    3. Involvement of Islet-2 in the Slit signaling for axonal branching and defasciculation of the sensory neurons in embryonic zebrafish. Yeo SY, et al. Mech Dev, 2004 Apr. PMID 15110042
    4. Recapitulation of zebrafish sncga expression pattern and labeling the habenular complex in transgenic zebrafish using green fluorescent protein reporter gene. Chen YC, et al. Dev Dyn, 2009 Mar. PMID 19235732
    5. The parapineal mediates left-right asymmetry in the zebrafish diencephalon. Gamse JT, et al. Development, 2003 Mar. PMID 12571098

    See all (21) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular region IDA
    Inferred from Direct Assay
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    spondin 1b; spondin-1b

    NCBI Reference Sequences (RefSeq)

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    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.

    mRNA and Protein(s)

    1. NM_131517.1 → NP_571592.1  spondin-1b precursor

      See identical proteins and their annotated locations for NP_571592.1

      Status: PROVISIONAL

      Source sequence(s)
      AB006087
      UniProtKB/TrEMBL
      O42114
      Related
      ENSDARP00000152322.1, ENSDART00000186578.1
      Conserved Domains (4) summary
      smart00209
      Location:755 → 803
      TSP1; Thrombospondin type 1 repeats
      cd08544
      Location:50 → 179
      Reeler; Reeler, the N-terminal domain of reelin, F-spondin, and a variety of other proteins
      pfam00090
      Location:614 → 661
      TSP_1; Thrombospondin type 1 domain
      pfam06468
      Location:200 → 387
      Spond_N; Spondin_N

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007136.7 Reference GRCz11 Primary Assembly

      Range
      15647697..15800834
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005174346.4 → XP_005174403.1  spondin 1b isoform X1

      UniProtKB/TrEMBL
      A0A8M2BLK8, F1R2Z9
      Related
      ENSDARP00000034007.8, ENSDART00000031828.9
      Conserved Domains (4) summary
      smart00209
      Location:756 → 804
      TSP1; Thrombospondin type 1 repeats
      cd08544
      Location:50 → 179
      Reeler; Reeler, the N-terminal domain of reelin, F-spondin, and a variety of other proteins
      pfam00090
      Location:614 → 661
      TSP_1; Thrombospondin type 1 domain
      pfam06468
      Location:200 → 387
      Spond_N; Spondin_N

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395194.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      179333..322954
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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