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Aliases for ARID3B Gene

Aliases for ARID3B Gene

  • AT-Rich Interaction Domain 3B 2 3 5
  • AT Rich Interactive Domain 3B (BRIGHT- Like) 2 3
  • ARID Domain-Containing Protein 3B 3 4
  • Bright And Dead Ringer Protein 3 4
  • Bright-Like Protein 3 4
  • DRIL2 3 4
  • BDP 3 4
  • AT-Rich Interactive Domain-Containing Protein 3B 3
  • AT Rich Interactive Domain 3B (BRIGHT-Like) 2

External Ids for ARID3B Gene

Previous GeneCards Identifiers for ARID3B Gene

  • GC15P072549
  • GC15P072620
  • GC15P074833
  • GC15P051630

Summaries for ARID3B Gene

Entrez Gene Summary for ARID3B Gene

  • This gene encodes a member of the ARID (AT-rich interaction domain) family of DNA-binding proteins. The encoded protein is homologous with two proteins that bind to the retinoblastoma gene product, and also with the mouse Bright and Drosophila dead ringer proteins. A pseudogene on chromosome 1p31 exists for this gene. Members of the ARID family have roles in embryonic patterning, cell lineage gene regulation, cell cycle control, transcriptional regulation and possibly in chromatin structure modification. [provided by RefSeq, Jul 2008]

GeneCards Summary for ARID3B Gene

ARID3B (AT-Rich Interaction Domain 3B) is a Protein Coding gene. Diseases associated with ARID3B include Neuroblastoma and Chromosome 15Q24 Deletion Syndrome. GO annotations related to this gene include RNA polymerase II core promoter proximal region sequence-specific DNA binding and RNA polymerase II distal enhancer sequence-specific DNA binding. An important paralog of this gene is ARID3A.

UniProtKB/Swiss-Prot for ARID3B Gene

  • Transcription factor which may be involved in neuroblastoma growth and malignant transformation. Favors nuclear targeting of ARID3A.

Gene Wiki entry for ARID3B Gene

Additional gene information for ARID3B Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ARID3B Gene

Genomics for ARID3B Gene

Regulatory Elements for ARID3B Gene

Enhancers for ARID3B Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH15H074460 1.4 Ensembl ENCODE 17.3 -79.6 -79554 3 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 ARID3B LOC101929333 SIN3A ENSG00000212279 SEMA7A CLK3 PML SCAMP5 UBL7 UBL7-AS1
GH15H074614 1.4 ENCODE dbSUPER 15.8 +75.1 75137 4 HDGF PKNOX1 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1 SIN3A EDC3 MAN2C1 ENSG00000260274 CLK3 PML UBL7-AS1 PTPN9 FAM219B LOC101929333
GH15H074539 1.8 FANTOM5 Ensembl ENCODE 11.8 +0.8 784 4 HDGF PKNOX1 ARID4B SIN3A FEZF1 ZNF2 ZBTB7B YY1 ZNF143 ZNF207 SIN3A MAN2C1 EDC3 ENSG00000260274 ISLR UBL7-AS1 COMMD4 UBL7 DNM1P34 LOC732265
GH15H074442 1.2 ENCODE dbSUPER 16.6 -97.3 -97343 2 FOXA2 ARID4B DMAP1 YY1 ATF7 SP5 ZHX2 MXD4 REST MIER2 ARID3B ENSG00000212279 LOC101929333 SCAMP5 UBL7 GC15P074444 SEMA7A
GH15H074373 1.6 FANTOM5 ENCODE dbSUPER 11.9 -167.0 -166975 2 PKNOX1 ATF1 ARNT ARID4B SIN3A ZNF2 GLIS2 ELK1 ZNF143 ZNF207 CSK SEMA7A UBL7-AS1 UBL7 ARID3B ENSG00000212279 CYP11A1 SCAMP2 PPIAP46 ISLR
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ARID3B on UCSC Golden Path with GeneCards custom track

Promoters for ARID3B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000079263 123 2201 HDGF PKNOX1 ARNT ARID4B SIN3A FEZF1 ZNF2 ZBTB7B YY1 ZNF143

Genomic Location for ARID3B Gene

Chromosome:
15
Start:
74,541,177 bp from pter
End:
74,598,131 bp from pter
Size:
56,955 bases
Orientation:
Plus strand

Genomic View for ARID3B Gene

Genes around ARID3B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ARID3B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ARID3B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ARID3B Gene

Proteins for ARID3B Gene

  • Protein details for ARID3B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IVW6-ARI3B_HUMAN
    Recommended name:
    AT-rich interactive domain-containing protein 3B
    Protein Accession:
    Q8IVW6
    Secondary Accessions:
    • O95443
    • Q59HC9
    • Q6P9C9

    Protein attributes for ARID3B Gene

    Size:
    561 amino acids
    Molecular mass:
    60637 Da
    Quaternary structure:
    • Heterodimer with ARID3A. Interacts with unphosphorylated RB1.
    SequenceCaution:
    • Sequence=BAD92067.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for ARID3B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ARID3B Gene

Post-translational modifications for ARID3B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ARID3B Gene

No data available for DME Specific Peptides for ARID3B Gene

Domains & Families for ARID3B Gene

Gene Families for ARID3B Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for ARID3B Gene

Suggested Antigen Peptide Sequences for ARID3B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ARID3B: view

No data available for UniProtKB/Swiss-Prot for ARID3B Gene

Function for ARID3B Gene

Molecular function for ARID3B Gene

UniProtKB/Swiss-Prot Function:
Transcription factor which may be involved in neuroblastoma growth and malignant transformation. Favors nuclear targeting of ARID3A.

Phenotypes From GWAS Catalog for ARID3B Gene

Gene Ontology (GO) - Molecular Function for ARID3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding IBA --
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding IEA --
GO:0000980 RNA polymerase II distal enhancer sequence-specific DNA binding IEA --
GO:0001077 transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding IEA --
GO:0001205 transcriptional activator activity, RNA polymerase II distal enhancer sequence-specific binding IEA --
genes like me logo Genes that share ontologies with ARID3B: view
genes like me logo Genes that share phenotypes with ARID3B: view

Animal Models for ARID3B Gene

MGI Knock Outs for ARID3B:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for ARID3B
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for ARID3B Gene

Localization for ARID3B Gene

Subcellular locations from UniProtKB/Swiss-Prot for ARID3B Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ARID3B gene
Compartment Confidence
nucleus 5

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for ARID3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus NAS,IBA 10446990
GO:0005654 nucleoplasm IDA --
genes like me logo Genes that share ontologies with ARID3B: view

Pathways & Interactions for ARID3B Gene

SuperPathways for ARID3B Gene

No Data Available

Gene Ontology (GO) - Biological Process for ARID3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006366 transcription from RNA polymerase II promoter IEA --
GO:0008150 biological_process ND --
GO:0045944 positive regulation of transcription from RNA polymerase II promoter IEA --
genes like me logo Genes that share ontologies with ARID3B: view

No data available for Pathways by source and SIGNOR curated interactions for ARID3B Gene

Drugs & Compounds for ARID3B Gene

No Compound Related Data Available

Transcripts for ARID3B Gene

Unigene Clusters for ARID3B Gene

AT rich interactive domain 3B (BRIGHT-like):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for ARID3B
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for ARID3B Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12
SP1:
SP2:
SP3: - -
SP4:
SP5:
SP6:

Relevant External Links for ARID3B Gene

GeneLoc Exon Structure for
ARID3B
ECgene alternative splicing isoforms for
ARID3B

Expression for ARID3B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ARID3B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for ARID3B Gene

This gene is overexpressed in Whole Blood (x8.4) and Testis (x4.7).

Protein differential expression in normal tissues from HIPED for ARID3B Gene

This gene is overexpressed in Placenta (40.6), Testis (10.8), CD8 Tcells (6.8), and Retina (6.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for ARID3B Gene



Protein tissue co-expression partners for ARID3B Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ARID3B Gene:

ARID3B

SOURCE GeneReport for Unigene cluster for ARID3B Gene:

Hs.655532

mRNA Expression by UniProt/SwissProt for ARID3B Gene:

Q8IVW6-ARI3B_HUMAN
Tissue specificity: Expressed in placenta, testis and leukocytes. Expressed in neuroblastoma. Present in K-562 erythrocytic leukemia cell line (at protein level).

Evidence on tissue expression from TISSUES for ARID3B Gene

  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with ARID3B: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for ARID3B Gene

Orthologs for ARID3B Gene

This gene was present in the common ancestor of animals.

Orthologs for ARID3B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ARID3B 34 33
  • 99.51 (n)
OneToOne
dog
(Canis familiaris)
Mammalia ARID3B 34 33
  • 90.37 (n)
OneToOne
cow
(Bos Taurus)
Mammalia ARID3B 34 33
  • 88.51 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Arid3b 34 16 33
  • 87.54 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Arid3b 33
  • 86.7 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia ARID3B 34
  • 83 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia ARID3B 34
  • 71 (a)
OneToOne
chicken
(Gallus gallus)
Aves ARID3B 34 33
  • 76.38 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia ARID3B 34
  • 71 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100496484 33
  • 61.64 (n)
zebrafish
(Danio rerio)
Actinopterygii arid3b 34
  • 45 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta retn 34
  • 20 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea cfi-1 34
  • 34 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6971 34
  • 34 (a)
OneToMany
Species where no ortholog for ARID3B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for ARID3B Gene

ENSEMBL:
Gene Tree for ARID3B (if available)
TreeFam:
Gene Tree for ARID3B (if available)

Paralogs for ARID3B Gene

Paralogs for ARID3B Gene

(2) SIMAP similar genes for ARID3B Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for ARID3B Gene

genes like me logo Genes that share paralogs with ARID3B: view

Variants for ARID3B Gene

Sequence variations from dbSNP and Humsavar for ARID3B Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs1000037959 -- 74,574,752(+) GTAAT(C/G)CCAGC intron-variant
rs1000082438 -- 74,540,030(+) TGTCA(A/C/T)CCAGG upstream-variant-2KB
rs1000170769 -- 74,568,334(+) TTCCT(C/G)ATCTC intron-variant
rs1000181948 -- 74,598,274(+) ACGCC(G/T)TCTTC downstream-variant-500B, upstream-variant-2KB
rs1000306825 -- 74,555,923(+) AGTAG(C/G)TGAGA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ARID3B Gene

Variant ID Type Subtype PubMed ID
esv1046755 CNV insertion 17803354
nsv1121512 CNV deletion 24896259
nsv1611 CNV insertion 18451855
nsv457204 CNV loss 19166990
nsv513433 CNV insertion 21212237
nsv569991 CNV loss 21841781
nsv817698 CNV gain 17921354
nsv976950 CNV duplication 23825009

Variation tolerance for ARID3B Gene

Residual Variation Intolerance Score: 78.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.78; 47.32% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ARID3B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ARID3B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ARID3B Gene

Disorders for ARID3B Gene

MalaCards: The human disease database

(2) MalaCards diseases for ARID3B Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
neuroblastoma
  • neuroblastoma 1
chromosome 15q24 deletion syndrome
  • 15q24 microdeletion syndrome
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for ARID3B

Genetic Association Database (GAD)
ARID3B
Human Genome Epidemiology (HuGE) Navigator
ARID3B
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ARID3B
genes like me logo Genes that share disorders with ARID3B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ARID3B Gene

Publications for ARID3B Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 45 60
  2. Genome-wide association study identifies eight loci associated with blood pressure. (PMID: 19430483) Newton-Cheh C … Munroe PB (Nature genetics 2009) 3 45 60
  3. Bdp, a new member of a family of DNA-binding proteins, associates with the retinoblastoma gene product. (PMID: 10446990) Numata S … Croce CM (Cancer research 1999) 3 4 60
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60
  5. Agonist-specific protein interactomes of glucocorticoid and androgen receptor as revealed by proximity mapping. (PMID: 28611094) Lempiäinen JK … Palvimo JJ (Molecular & cellular proteomics : MCP 2017) 3 60

Products for ARID3B Gene

Sources for ARID3B Gene

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