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    ssbp3b single stranded DNA binding protein 3b [ Danio rerio (zebrafish) ]

    Gene ID: 406759, updated on 2-Nov-2024

    Summary

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    Official Symbol
    ssbp3bprovided by ZNC
    Official Full Name
    single stranded DNA binding protein 3bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-2801
    See related
    Ensembl:ENSDARG00000030155 AllianceGenome:ZFIN:ZDB-GENE-040426-2801
    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
    SSBP3; SSDP1a; zgc:63791; id:ibd1109
    Summary
    Predicted to enable single-stranded DNA binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Is expressed in immature eye and nervous system. Orthologous to human SSBP3 (single stranded DNA binding protein 3). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
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    Genomic context

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    See ssbp3b in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 8 NC_007119.7 (18010964..18036640)
    105 previous assembly GRCz10 (GCF_000002035.5) 8 NC_007119.6 (17975197..18000932)

    Chromosome 8 - NC_007119.7Genomic Context describing neighboring genes Neighboring gene si:dkey-267j14.7 Neighboring gene fucose-1-phosphate guanylyltransferase Neighboring gene acyl-CoA thioesterase 11b Neighboring gene zinc finger protein GLIS1 Neighboring gene iodothyronine deiodinase 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. SSDP cofactors regulate neural patterning and differentiation of specific axonal projections. Zhong Z, et al. Dev Biol, 2011 Jan 15. PMID 21056553, Free PMC Article
    2. A Toolbox for Efficient Proximity-Dependent Biotinylation in Zebrafish Embryos. Rosenthal SM, et al. Mol Cell Proteomics, 2021. PMID 34332124, Free PMC Article
    3. A gene expression screen in zebrafish embryogenesis. Kudoh T, et al. Genome Res, 2001 Dec. PMID 11731487
    4. Comprehensive expression map of transcription regulators in the adult zebrafish telencephalon reveals distinct neurogenic niches. Diotel N, et al. J Comp Neurol, 2015 Jun 1. PMID 25556858, Free PMC Article
    5. Contrasted innate responses to two viruses in zebrafish: insights into the ancestral repertoire of vertebrate IFN-stimulated genes. Briolat V, et al. J Immunol, 2014 May 1. PMID 24683187

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables single-stranded DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    single-stranded DNA-binding protein 3b
    Names
    single stranded DNA binding protein 3
    single-stranded DNA-binding protein 1a

    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_213450.1 → NP_998615.1  single-stranded DNA-binding protein 3b

      See identical proteins and their annotated locations for NP_998615.1

      Status: PROVISIONAL

      Source sequence(s)
      BC056827
      UniProtKB/TrEMBL
      A0A8M1PJF7, Q6PGU6
      Related
      ENSDARP00000039886.5, ENSDART00000039887.7
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 325
      SSDP; Single-stranded DNA binding protein, SSDP

    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_007119.7 Reference GRCz11 Primary Assembly

      Range
      18010964..18036640
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005166809.5 → XP_005166866.1  single-stranded DNA-binding protein 3b isoform X1

      See identical proteins and their annotated locations for XP_005166866.1

      UniProtKB/TrEMBL
      A0A8M2BE68, D0EWT5
      Related
      ENSDARP00000109873.1, ENSDART00000121984.3
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 349
      SSDP; Single-stranded DNA binding protein, SSDP

    2. XM_005166810.5 → XP_005166867.1  single-stranded DNA-binding protein 3b isoform X2

      UniProtKB/TrEMBL
      A0A8M2BEV3
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 349
      SSDP; Single-stranded DNA binding protein, SSDP

    3. XM_009303844.4 → XP_009302119.1  single-stranded DNA-binding protein 3b isoform X3

      UniProtKB/TrEMBL
      A0A8M3B4R8
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 325
      SSDP; Single-stranded DNA binding protein, SSDP
    Nucleotide Protein Strain
    Heading Accession and Version

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