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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 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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