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

Gene ID: 571249, updated on 10-Oct-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, Apr 2022]
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 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
    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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