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    arid3b AT-rich interactive domain 3B [ Danio rerio (zebrafish) ]

    Gene ID: 571249, updated on 9-Dec-2024

    Summary

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    Official Symbol
    arid3bprovided by ZNC
    Official Full Name
    AT-rich interactive domain 3Bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-070209-182
    See related
    Ensembl:ENSDARG00000104034 AllianceGenome:ZFIN:ZDB-GENE-070209-182
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    wu:fc16g09; wu:fc87c02; zgc:158235
    Summary
    Predicted to enable DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to human ARID3B (AT-rich interaction domain 3B). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See arid3b in Genome Data Viewer
    Location:
    chromosome: 25
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 25 NC_007136.7 (28987957..29074218, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 25 NC_007136.6 (28544755..28631055, complement)

    Chromosome 25 - NC_007136.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101884668 Neighboring gene synaptotagmin XVIIIb Neighboring gene cytochrome c oxidase subunit 5Aa Neighboring gene ribonuclease P and MRP subunit p25, 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. Embryonic exposure to 10 μg L(-1) lead results in female-specific expression changes in genes associated with nervous system development and function and Alzheimer's disease in aged adult zebrafish brain. Lee J, et al. Metallomics, 2016 Jun 1. PMID 26776728
    2. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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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    Markers

    Homology

    Clone Names

    • MGC158235

    Gene Ontology Provided by ZFIN

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

    General protein information

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    Preferred Names
    AT-rich interactive domain-containing protein 3B
    Names
    AT rich interactive domain 3B (BRIGHT-like)
    AT rich interactive domain 3B (Bright like)

    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_001083002.2 → NP_001076471.2  AT-rich interactive domain-containing protein 3B

      Status: VALIDATED

      Source sequence(s)
      CR376821, FP017193
      UniProtKB/TrEMBL
      A0A0R4IZF6, A0A8M2BA85, A2RRV2
      Related
      ENSDARP00000141926.1, ENSDART00000165603.2

    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
      28987957..29074218 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009298079.4 → XP_009296354.1  AT-rich interactive domain-containing protein 3B isoform X1

      UniProtKB/TrEMBL
      A0A8M3AP64, A2RRV2
      Conserved Domains (2) summary
      smart00501
      Location:230 → 322
      BRIGHT; BRIGHT, ARID (A/T-rich interaction domain) domain
      pfam14059
      Location:482 → 525
      DUF4251; Domain of unknown function (DUF4251)
    Nucleotide Protein
    Heading Accession and Version

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