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    cspg5b chondroitin sulfate proteoglycan 5b [ Danio rerio (zebrafish) ]

    Gene ID: 559358, updated on 27-Mar-2024

    Summary

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    Official Symbol
    cspg5bprovided by ZNC
    Official Full Name
    chondroitin sulfate proteoglycan 5bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-060503-368
    See related
    Ensembl:ENSDARG00000099793 AllianceGenome:ZFIN:ZDB-GENE-060503-368
    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
    si:dkeyp-114f9.4
    Summary
    Predicted to be involved in cell projection morphogenesis and trans-synaptic signaling, modulating synaptic transmission. Predicted to act upstream of or within nervous system development. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in synapse. Is expressed in granule cell. Orthologous to human CSPG5 (chondroitin sulfate proteoglycan 5). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    Location:
    chromosome: 19
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (19278115..19339350, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (19705219..19766390, complement)

    Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene mitochondrial ribosomal protein L3 Neighboring gene protein tyrosine phosphatase, non-receptor type 23, b Neighboring gene SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1b Neighboring gene KAT8 regulatory NSL complex subunit 1-like

    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. Endogenous CRISPR/Cas9 arrays for scalable whole-organism lineage tracing. Cotterell J, et al. Development, 2020 May 12. PMID 32398353
    2. Gene expression profiling of granule cells and Purkinje cells in the zebrafish cerebellum. Takeuchi M, et al. J Comp Neurol, 2017 May 1. PMID 27615194
    3. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    involved_in cell projection morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within nervous system development IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in synapse IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    chondroitin sulfate proteoglycan 5 (neuroglycan C); chondroitin sulfate proteoglycan 5b

    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_001044892.1 → NP_001038357.1  chondroitin sulfate proteoglycan 5b precursor

      Status: PROVISIONAL

      Source sequence(s)
      CR626877
      UniProtKB/TrEMBL
      A0A0R4INR6, A0A8M1N9R7
      Related
      ENSDARP00000136195.1, ENSDART00000158413.2
      Conserved Domains (1) summary
      pfam06567
      Location:363 → 478
      Neural_ProG_Cyt; Neural chondroitin sulphate proteoglycan cytoplasmic domain

    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_007130.7 Reference GRCz11 Primary Assembly

      Range
      19278115..19339350 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009294162.3 → XP_009292437.1  chondroitin sulfate proteoglycan 5 (neuroglycan C) isoform X1

      UniProtKB/TrEMBL
      A0A8M3AK55
      Conserved Domains (1) summary
      pfam06567
      Location:363 → 470
      Neural_ProG_Cyt; Neural chondroitin sulphate proteoglycan cytoplasmic domain

    2. XM_005159515.4 → XP_005159572.2  chondroitin sulfate proteoglycan 5 (neuroglycan C) isoform X2

      UniProtKB/TrEMBL
      A0A8M2B667
      Conserved Domains (1) summary
      pfam06567
      Location:363 → 463
      Neural_ProG_Cyt; Neural chondroitin sulphate proteoglycan cytoplasmic domain

    3. XM_005159516.4 → XP_005159573.2  chondroitin sulfate proteoglycan 5 (neuroglycan C) isoform X3

      UniProtKB/TrEMBL
      A0A0R4IMK4, A0A8M2B640
      Related
      ENSDARP00000135714.1, ENSDART00000170479.2
      Conserved Domains (1) summary
      pfam06567
      Location:363 → 444
      Neural_ProG_Cyt; Neural chondroitin sulphate proteoglycan cytoplasmic domain
    Nucleotide Protein
    Heading Accession and Version

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