U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    spon1b spondin 1b [ Danio rerio (zebrafish) ]

    Gene ID: 58029, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    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. [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See spon1b in Genome Data Viewer
    Location:
    chromosome: 25
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 25 NC_007136.7 (15647707..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 LOC137489394 Neighboring gene uncharacterized LOC137489339 Neighboring gene uncharacterized LOC110438405 Neighboring gene synaptotagmin IXb Neighboring gene olfactomedin-like 1

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    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 (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    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

    Go to the top of the page Help
    Preferred Names
    spondin-1b

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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.

    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: 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_007136.7 Reference GRCz11 Primary Assembly

      Range
      15647707..15800834
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005174346.5 → 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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials
    Tools