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    ssbp3a single stranded DNA binding protein 3a [ Danio rerio (zebrafish) ]

    Gene ID: 100005603, updated on 9-Dec-2024

    Summary

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    Official Symbol
    ssbp3aprovided by ZNC
    Official Full Name
    single stranded DNA binding protein 3aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-070705-484
    See related
    Ensembl:ENSDARG00000058237 AllianceGenome:ZFIN:ZDB-GENE-070705-484
    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; SSDP1b; si:dkey-63k7.6
    Summary
    Predicted to enable single-stranded DNA binding activity. Acts upstream of or within peripheral nervous system neuron axonogenesis. Predicted to be active in nucleus. Is expressed in Rohon-Beard neurons; telencephalon; trigeminal ganglion; and trigeminal placode. Orthologous to human SSBP3 (single stranded DNA binding protein 3). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See ssbp3a in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (10931821..11027304, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (11150709..11243730, complement)

    Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene CUB domain containing protein 2 Neighboring gene mitochondrial ribosomal protein L37 Neighboring gene acyl-CoA thioesterase 11a Neighboring gene family with sequence similarity 151 member A

    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. Functional enrichment analysis based on long noncoding RNA associations. Hung KS, et al. BMC Syst Biol, 2018 Apr 24. PMID 29745842, Free PMC Article
    3. 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
    4. 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
    5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC194220

    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
    acts_upstream_of_or_within peripheral nervous system neuron axonogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 3a
    Names
    single stranded DNA binding protein 3

    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_001130643.1 → NP_001124115.1  single-stranded DNA-binding protein 3a

      See identical proteins and their annotated locations for NP_001124115.1

      Status: PROVISIONAL

      Source sequence(s)
      BC163618
      UniProtKB/TrEMBL
      A0A8M1NI89, B3DJV4
      Related
      ENSDARP00000075515.3, ENSDART00000081072.6
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 365
      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_007113.7 Reference GRCz11 Primary Assembly

      Range
      10931821..11027304 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005171143.5 → XP_005171200.1  single-stranded DNA-binding protein 3a isoform X2

      UniProtKB/TrEMBL
      A0A8M2BIV3, F1QSQ7
      Related
      ENSDARP00000088512.4, ENSDART00000097741.6
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 340
      SSDP; Single-stranded DNA binding protein, SSDP

    2. XM_009297791.4 → XP_009296066.1  single-stranded DNA-binding protein 3a isoform X1

      UniProtKB/TrEMBL
      A0A2R8QDI9, A0A8M3AZG7
      Related
      ENSDARP00000149880.1, ENSDART00000193824.1
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 366
      SSDP; Single-stranded DNA binding protein, SSDP
    Nucleotide Protein
    Heading Accession and Version

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