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spon1b spondin 1b [ Danio rerio (zebrafish) ]

Gene ID: 58029, updated on 2-Nov-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. [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
all
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Genomic context

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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

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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. 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

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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

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: 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

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