ARID3B Gene
protein-coding GIFtS: 52
GCID: GC15P074833
|
|
AT rich interactive domain 3B (BRIGHT-like)(Previous name: AT rich interactive domain 3B (BRIGHT- like) )
| |
Aliases for ARID3B gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb) About This Section
|
| Aliases |
|---|
| AT Rich Interactive Domain 3B (BRIGHT-Like)1 2 | | Bright And Dead Ringer Protein2 3 | | BDP1 2 3 5 | | Bright-Like Protein2 3 | | DRIL21 2 3 5 | | ARID Domain-Containing Protein 3B2 3 | | AT Rich Interactive Domain 3B (BRIGHT- Like)1 2 | | AT-Rich Interactive Domain-Containing Protein 3B2 |
Export aliases for ARID3B gene to outside databasesPrevious GC identifers: GC15P072549 GC15P072620 GC15P051630 |
Summaries for ARID3B gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
| Entrez Gene summary for ARID3B: This gene encodes a member of the ARID (AT-rich interaction domain) family of DNA-binding proteins. The encoded proteinis homologous with two proteins that bind to the retinoblastoma gene product, and also with the mouse Bright andDrosophila dead ringer proteins. A pseudogene on chromosome 1p31 exists for this gene. Members of the ARID family haveroles in embryonic patterning, cell lineage gene regulation, cell cycle control, transcriptional regulation andpossibly in chromatin structure modification. (provided by RefSeq, Jul 2008) UniProtKB/Swiss-Prot: ARI3B_HUMAN, Q8IVW6Function: Transcription factor which may be involved in neuroblastoma growth and malignant transformation. Favorsnuclear targeting of ARID3A Gene Wiki entry for ARID3B
|
Genomic Views for ARID3B gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics) About This Section
| RefSeq DNA sequence:- NC_000015.9 NC_018926.1 NT_010194.17
Regulatory elements: SABiosciences Regulatory transcription factor binding sites in the ARID3B gene promoter: AhR STAT1 NF-1 STAT4 STAT1beta STAT5A STAT1alpha AREB6 STAT2 STAT3 Other transcription factors
Search SABiosciences Chromatin IP Primers for ARID3B
Epigenetics:
|  | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ARID3B |
Genomic Location: Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 15q24 Ensembl cytogenetic band: 15q24.1 HGNC cytogenetic band: 15q24ARID3B Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different)

GeneLoc information about chromosome 15 GeneLoc Exon Structure GeneLoc location for GC15P074833: view genomic region
(about GC identifiers)
Start:
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74,833,518 bp from pter |
End:
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74,890,472 bp from pter |
Size:
|
56,955 bases |
Orientation:
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plus strand |
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Proteins for ARID3B gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
| UniProtKB/Swiss-Prot: ARI3B_HUMAN, Q8IVW6 (See
protein sequence)Recommended Name: AT-rich interactive domain-containing protein 3B Size: 561 amino acids; 60637 Da
Subunit: Heterodimer with ARID3A. Interacts with unphosphorylated RB1
Subcellular location: Nucleus
Sequence caution: Sequence=BAD92067.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Secondary accessions: O95443 Q59HC9 Q6P9C9Alternative splicing: 3 isoforms: Q8IVW6-1 Q8IVW6-3 Q8IVW6-4 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for ARID3B: NX_Q8IVW6
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q8IVW6 ARID3B Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_006456.1 ENSEMBL proteins: ENSP00000343126 ENSP00000455668 Human Recombinant Protein Products:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table
ARID3B for ontologies About GeneDecksing
ARID3B Antibody Products: Assay Products for ARID3B: |
Protein
Domains / Families for ARID3B gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
ARID3B for domains About GeneDecksing
2 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q8IVW6ProtoNet protein and cluster: Q8IVW6 1 Blocks protein family: IPB001606 ARID (AT-rich interaction domain) protein
UniProtKB/Swiss-Prot: ARI3B_HUMAN, Q8IVW6Similarity: Contains 1 ARID domainSimilarity: Contains 1 REKLES domain |
Function for ARID3B gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
| Function Summary: UniProtKB/Swiss-Prot: ARI3B_HUMAN, Q8IVW6Function: Transcription factor which may be involved in neuroblastoma growth and malignant transformation. Favorsnuclear targeting of ARID3A
Clone Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for ARID3B (see all 3) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for ARID3B OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
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In Situ Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ARID3B |
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table
ARID3B for ontologies About GeneDecksing
Animal Models: Mouse knock-out Arid3btm1Take for ARID3B 8 MGI mutant phenotypes (inferred from 2 alleles ) (MGI details for Arid3b):
ARID3B for phenotypes About GeneDecksing
|
Pathways & Interactions for ARID3B gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for ARID3B
STRING Interaction
Network Preview (showing 5 interactants - click image to see 6)
 5/9 Interacting proteins for ARID3B (Q8IVW63 ENSP000003431264) via UniProtKB, MINT, STRING, and/or I2D (see all 9)About this table
Gene Ontology (GO): 3 biological process terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0006351 | transcription, DNA-dependent |
IEA | -- | | GO:0006355 | regulation of transcription, DNA-dependent |
IEA | -- | | GO:0008150 | biological_process |
ND | -- |
ARID3B for ontologies About GeneDecksing
|
Drugs & Compounds for ARID3B gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
Browse Tocris compounds for ARID3B Search CenterWatch for drugs/clinical trials and news about ARID3B / ARI3B 
|
Transcripts for ARID3B gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank, RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
) About This Section
| REFSEQ mRNAs for ARID3B gene: NM_006465.2 Unigene Cluster for ARID3B: AT rich interactive domain 3B (BRIGHT-like) Hs.655532 [show with all ESTs]Unigene Representative Sequence: AB2088305 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000346246(uc002ayd.3 uc002aye.3 uc010bjs.1) ENST00000569680(uc002ayc.3) ENST00000566147 ENST00000566468 ENST00000563567
Clone Products: |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for ARID3B (see all 3) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for ARID3B OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: ARID3B (NM_006465) | |  | DNA2.0 Custom Codon Optimized Gene
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Additional cDNA sequence: AB208830.1 AF116846.1 AK298716.1 AK302034.1 AL137417.1 BC041792.1 BC045545.1 6 DOTS entries: DT.411085 DT.97763441 DT.101976390 DT.121015166 DT.91978191 DT.102829206 24/86 AceView cDNA sequences (see all 86): BF592776 BM703620 AW674283 AA306227 AW168390 AA515479 BF509827 AJ713835 CR621500 CA449351 AA463955 BG394243 BU632760 BG031829 BQ062564 AI312663 AL552414 BV199967 BG818833 AL137417 CA502983 BQ017395 BE279803 BG253792 GeneLoc Exon Structure
5/6 Alternative Splicing Database (ASD) splice patterns (SP) for ARID3B (see all 6) About this scheme
| ExUns: | 1 | ^ | 2 | ^ | 3a | · | 3b | ^ | 4 | ^ | 5 | ^ | 6 | ^ | 7a | · | 7b | · | 7c | ^ | 8 | ^ | 9a | · | 9b | ^ | 10 | ^ | 11 | ^ | 12 | |
| SP1: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP2: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP3: | |   | |   | |   | |   | - |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP4: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP5: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   |
ECgene alternative splicing isoforms for ARID3B
|
Expression for ARID3B gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| ARID3B expression in normal human tissues (normalized intensities) See probesets specificity/sensitivity at GeneAnnot About this imageBioGPS CGAP TAG: TTCTCGAATG
About this image See ARID3B Protein Expression from SPIRE MOPED and PaxDB Genevestigator expression for ARID3B
SOURCE GeneReport for Unigene cluster: Hs.655532 UniProtKB/Swiss-Prot: ARI3B_HUMAN, Q8IVW6Tissue specificity: Expressed in placenta, testis and leukocytes. Expressed in neuroblastoma. Present in K-562erythrocytic leukemia cell line (at protein level) SABiosciences Custom PCR Arrays for ARID3B
Primer Products: |  | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for ARID3B Browse OriGene validated miRNA SYBR primer pairs
| |  | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat ARID3B | |  | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat ARID3B | |  | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat ARID3B | In Situ Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ARID3B |
Orthologs for ARID3B gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of animals.
Orthologs for ARID3B gene from 5/19 species (see all 19) About this table
| Organism |
Taxonomic classification |
Gene |
Description |
Human Similarity |
Orthology Type |
Details |
chicken (Gallus gallus) |
Aves |
ARID3B1 |
AT rich interactive domain 3B (BRIGHT-like) |
76.28(n) 73.75(a) |
  |
100859297 XM_003641807.1 XP_003641855.1 |
lizard (Anolis carolinensis) |
Reptilia |
ARID3B6 |
-- |
70(a) |
1 ↔ 1 |
GL343721.1(211265-241671) |
zebrafish (Danio rerio) |
Actinopterygii |
arid3b1 |
AT rich interactive domain 3B (Bright like) |
59.37(n) 52.21(a) |
  |
571249 NM_001083002.1 NP_001076471.1 |
fruit fly (Drosophila melanogaster) |
Insecta |
retn6 |
retained |
15(a) |
1 → many |
2R(19520135-19542343) |
worm (Caenorhabditis elegans) |
Secernentea |
cfi-16 |
AT-rich interactive domain-containing protein cfi-... |
24(a) |
1 → many |
I(9994721-9999918) |
ENSEMBL Gene Tree for ARID3B (if available) TreeFam Gene Tree for ARID3B (if available)  |
Paralogs for ARID3B gene(Paralogs according to
1HomoloGene, 2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68) About This Section
| Paralogs for ARID3B gene
- ARID1B2 ARID3C2 ARID3A2 ARID1A2
2 SIMAP similar genes for ARID3B using alignment to 2 protein entries: ARI3B_HUMAN (see all proteins):ARID3A ARID3C
ARID3B for paralogs About GeneDecksing
1 Pseudogenes.org Pseudogene for ARID3B PGOHUM00000244775
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Genomic Variants for ARID3B gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical significance | Chr 15 pos | Sequence | # | AA Chg | Type | More | # | Allele freq | Pop | Total sample | More |
|---|
HapMap Linkage Disequilibrium report for ARID3B (74833518 - 74890472 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions) Database of Genomic Variants (DGV): 4 variations for ARID3B 3 CNVs: 35339 9749 23501 1 Inversion: 37170  | SABiosciences Cancer Mutation PCR Assays |
|  | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing ARID3B |
|
Disorders
/ Diseases for ARID3B gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
ARID3B for disorders About GeneDecksing
OMIM gene information: 612457
OMIM disorders: --
8 diseases for ARID3B: About MalaCardsretinoblastoma imperforate anus intestinal atresia gastroschisis ovarian cancer neuroblastoma leukemia neuronitis 2 diseases from the University of Copenhagen DISEASES database for ARID3B:Intestinal atresia Imperforate anus Human Genome Epidemiology (HuGE) Navigator: ARID3B (1 document) Export disorders for ARID3B gene to outside databases
|
Publications for ARID3B gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for ARID3B gene, integrated from 9 sources (see all 21): (articles sorted by number of sources associating them with ARID3B) | |  | Utopia: connect your pdf to the dynamic world of online information |
- Bdp, a new member of a family of DNA-binding proteins, associates with the retinoblastoma gene product. (PubMed id 10446990)1, 2 Numata S.... Croce C.M. (1999)
- miR-125b targets ARID3B in breast cancer cells. (PubMed id 22307404)1 Akhavantabasi S....Erson-Bensan A.E. (2012)
- ARID3B induces tumor necrosis factor alpha mediated ap optosis while a novel ARID3B splice form does not induce cell death. (PubMed id 22860069)1 Joseph S....Cowden Dahl K.D. (2012)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)
- Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
- Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
- Genome-wide YFP fluorescence complementation screen id entifies new regulators for telomere signaling in human cells. (PubMed id 21044950)1 Lee O.H....Songyang Z. (2011)
- Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (2010)
- An atlas of combinatorial transcriptional regulation in mouse and man. (PubMed id 20211142)1 Ravasi T....Hayashizaki Y. (2010)
|
External Searches for ARID3B gene
(in PubMed,
OMIM, and NCBI Bookshelf) About This Section
|
|
Genome Databases showing ARID3B gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing ARID3B gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing ARID3B gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL, Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot) About This Section
|
| Name | Description |
| PharmGKB entry for ARID3B | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for ARID3B gene: Search GeneIP for patents involving ARID3B
GeneCards and IP: Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products for ARID3B gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences), In Situ Hybridization Assays from Advanced Cell Diagnostics About This Section
|
 | |
 | |
 |
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| | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for ARID3B |
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