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Aliases for ARID5B Gene

Aliases for ARID5B Gene

  • AT-Rich Interaction Domain 5B 2 3 5
  • ARID Domain-Containing Protein 5B 3 4
  • MRF1-Like Protein 3 4
  • DESRT 3 4
  • MRF-2 3 4
  • MRF2 3 4
  • AT-Rich Interactive Domain-Containing Protein 5B 3
  • AT Rich Interactive Domain 5B (MRF1-Like) 2
  • AT-Rich Interactive Domain 5B (MRF1-Like) 3
  • Modulator Recognition Factor 2 (MRF2) 3
  • Modulator Recognition Factor 2 4

External Ids for ARID5B Gene

Previous GeneCards Identifiers for ARID5B Gene

  • GC10P063006
  • GC10P063327
  • GC10P063661
  • GC10P057650

Summaries for ARID5B Gene

Entrez Gene Summary for ARID5B Gene

  • This gene encodes a member of the AT-rich interaction domain (ARID) family of DNA binding proteins. The encoded protein forms a histone H3K9Me2 demethylase complex with PHD finger protein 2 and regulates the transcription of target genes involved in adipogenesis and liver development. This gene also plays a role in cell growth and differentiation of B-lymphocyte progenitors, and single nucleotide polymorphisms in this gene are associated with acute lymphoblastic leukemia. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Sep 2011]

GeneCards Summary for ARID5B Gene

ARID5B (AT-Rich Interaction Domain 5B) is a Protein Coding gene. Diseases associated with ARID5B include Lymphoblastic Leukemia and Childhood Leukemia. Among its related pathways are Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 and Chromatin organization. GO annotations related to this gene include transcription coactivator activity and RNA polymerase II regulatory region sequence-specific DNA binding. An important paralog of this gene is ARID5A.

UniProtKB/Swiss-Prot for ARID5B Gene

  • Transcription coactivator that binds to the 5-AATA[CT]-3 core sequence and plays a key role in adipogenesis and liver development. Acts by forming a complex with phosphorylated PHF2, which mediates demethylation at Lys-336, leading to target the PHF2-ARID5B complex to target promoters, where PHF2 mediates demethylation of dimethylated Lys-9 of histone H3 (H3K9me2), followed by transcription activation of target genes. The PHF2-ARID5B complex acts as a coactivator of HNF4A in liver. Required for adipogenesis: regulates triglyceride metabolism in adipocytes by regulating expression of adipogenic genes. Overexpression leads to induction of smooth muscle marker genes, suggesting that it may also act as a regulator of smooth muscle cell differentiation and proliferation. Represses the cytomegalovirus enhancer.

Gene Wiki entry for ARID5B Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ARID5B Gene

Genomics for ARID5B Gene

Regulatory Elements for ARID5B Gene

Enhancers for ARID5B 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
GH10F061936 1.9 FANTOM5 Ensembl ENCODE 16.3 +39.8 39793 9.3 PKNOX1 ARNT SIN3A FEZF1 ZNF2 YY1 ZNF766 CBX5 FOS ZNF263 ARID5B GC10P062026
GH10F062242 1.4 FANTOM5 Ensembl ENCODE 14.2 +343.2 343243 4.2 PKNOX1 SIN3A ZNF2 CBX5 ZNF143 FOS JUNB REST TBX21 PPARG ARID5B RTKN2 ZNF365 LOC105378325
GH10F062035 0.7 Ensembl ENCODE 11.7 +136.8 136800 4.4 ELF3 PKNOX1 ZNF2 RAD21 ZNF143 ZNF391 CREM THAP11 ZNF362 ZNF654 ARID5B GC10P062026 GC10M062083
GH10F061759 1.2 Ensembl ENCODE 11.6 -138.4 -138442 7.5 HDGF PKNOX1 ARNT CREB3L1 SIN3A DMAP1 FEZF1 ZNF2 ZNF766 CBX5 ARID5B RTKN2 C10orf107 GC10P061754 ENSG00000233643
GH10F062240 0.2 Ensembl 11.6 +339.1 339147 0.8 ARID5B LOC105378325 LOC105378326
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around ARID5B on UCSC Golden Path with GeneCards custom track

Promoters for ARID5B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000355797 946 6001 HDGF PKNOX1 ARNT WRNIP1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2

Genomic Location for ARID5B Gene

Chromosome:
10
Start:
61,901,254 bp from pter
End:
62,096,948 bp from pter
Size:
195,695 bases
Orientation:
Plus strand

Genomic View for ARID5B Gene

Genes around ARID5B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ARID5B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ARID5B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ARID5B Gene

Proteins for ARID5B Gene

  • Protein details for ARID5B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q14865-ARI5B_HUMAN
    Recommended name:
    AT-rich interactive domain-containing protein 5B
    Protein Accession:
    Q14865
    Secondary Accessions:
    • B4DLB3
    • Q05DG6
    • Q32Q59
    • Q5VST4
    • Q6NZ42
    • Q7Z3M4
    • Q8N421
    • Q9H786

    Protein attributes for ARID5B Gene

    Size:
    1188 amino acids
    Molecular mass:
    132375 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH15120.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=AAH36831.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=AAH66345.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=AAI07801.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=BAB15012.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for ARID5B Gene

    Alternative splice isoforms for ARID5B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ARID5B Gene

Post-translational modifications for ARID5B Gene

  • Methylation at Lys-336 prevents DNA-binding. Demethylation by PHF2 promotes recruitment of the PHF2-ARID5B complex to promoters.
  • Ubiquitination at Lys 74, Lys 935, and Lys 1187
  • Modification sites at PhosphoSitePlus

Other Protein References for ARID5B Gene

No data available for DME Specific Peptides for ARID5B Gene

Domains & Families for ARID5B Gene

Gene Families for ARID5B Gene

Protein Domains for ARID5B Gene

Suggested Antigen Peptide Sequences for ARID5B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q14865

UniProtKB/Swiss-Prot:

ARI5B_HUMAN :
  • The ARID domain mediates the interaction with DNA.
  • Belongs to the ARID5B family.
Domain:
  • The ARID domain mediates the interaction with DNA.
  • Contains 1 ARID domain.
Family:
  • Belongs to the ARID5B family.
genes like me logo Genes that share domains with ARID5B: view

Function for ARID5B Gene

Molecular function for ARID5B Gene

UniProtKB/Swiss-Prot Function:
Transcription coactivator that binds to the 5-AATA[CT]-3 core sequence and plays a key role in adipogenesis and liver development. Acts by forming a complex with phosphorylated PHF2, which mediates demethylation at Lys-336, leading to target the PHF2-ARID5B complex to target promoters, where PHF2 mediates demethylation of dimethylated Lys-9 of histone H3 (H3K9me2), followed by transcription activation of target genes. The PHF2-ARID5B complex acts as a coactivator of HNF4A in liver. Required for adipogenesis: regulates triglyceride metabolism in adipocytes by regulating expression of adipogenic genes. Overexpression leads to induction of smooth muscle marker genes, suggesting that it may also act as a regulator of smooth muscle cell differentiation and proliferation. Represses the cytomegalovirus enhancer.

Gene Ontology (GO) - Molecular Function for ARID5B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding IDA 8649988
GO:0001227 transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding IDA 8649988
GO:0003677 DNA binding IDA 10329386
GO:0003713 contributes_to transcription coactivator activity IDA 21532585
GO:0005515 protein binding IPI 21532585
genes like me logo Genes that share ontologies with ARID5B: view
genes like me logo Genes that share phenotypes with ARID5B: view

Animal Models for ARID5B Gene

MGI Knock Outs for ARID5B:

Animal Model Products

miRNA for ARID5B Gene

miRTarBase miRNAs that target ARID5B

Transcription Factor Targets for ARID5B Gene

Selected GeneGlobe predicted Target genes for ARID5B

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology and HOMER Transcription for ARID5B Gene

Localization for ARID5B Gene

Subcellular locations from UniProtKB/Swiss-Prot for ARID5B Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for ARID5B Gene COMPARTMENTS Subcellular localization image for ARID5B gene
Compartment Confidence
nucleus 5
cytosol 3
plasma membrane 2

Gene Ontology (GO) - Cellular Components for ARID5B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IC,IBA --
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with ARID5B: view

Pathways & Interactions for ARID5B Gene

genes like me logo Genes that share pathways with ARID5B: view

Pathways by source for ARID5B Gene

Gene Ontology (GO) - Biological Process for ARID5B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IDA 8649988
GO:0001822 kidney development IEA --
GO:0001889 liver development TAS 21532585
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with ARID5B: view

No data available for SIGNOR curated interactions for ARID5B Gene

Drugs & Compounds for ARID5B Gene

(1) Drugs for ARID5B Gene - From: PharmGKB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Methotrexate Approved Pharma Folate antagonist,inhibits DFHR 1518
genes like me logo Genes that share compounds with ARID5B: view

Transcripts for ARID5B Gene

mRNA/cDNA for ARID5B Gene

(4) REFSEQ mRNAs :
(14) Additional mRNA sequences :
(2) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for ARID5B Gene

AT rich interactive domain 5B (MRF1-like):
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for ARID5B Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8a · 8b · 8c · 8d ^ 9 ^ 10 ^ 11 ^ 12a · 12b · 12c ^ 13
SP1: - - - - -
SP2: - -
SP3: -
SP4:
SP5: - - - - -
SP6: - -
SP7:
SP8: - -

Relevant External Links for ARID5B Gene

GeneLoc Exon Structure for
ARID5B
ECgene alternative splicing isoforms for
ARID5B

Expression for ARID5B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for ARID5B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for ARID5B Gene

This gene is overexpressed in Muscle - Skeletal (x6.7).

Protein differential expression in normal tissues from HIPED for ARID5B Gene

This gene is overexpressed in Saliva (50.5) and Fetal testis (12.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for ARID5B Gene



Protein tissue co-expression partners for ARID5B Gene

NURSA nuclear receptor signaling pathways regulating expression of ARID5B Gene:

ARID5B

SOURCE GeneReport for Unigene cluster for ARID5B Gene:

Hs.535297

mRNA Expression by UniProt/SwissProt for ARID5B Gene:

Q14865-ARI5B_HUMAN
Tissue specificity: Widely expressed, including in liver (at protein level).
genes like me logo Genes that share expression patterns with ARID5B: view

Primer Products

Orthologs for ARID5B Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for ARID5B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ARID5B 34 35
  • 99.66 (n)
cow
(Bos Taurus)
Mammalia ARID5B 34 35
  • 90.81 (n)
mouse
(Mus musculus)
Mammalia Arid5b 34 16 35
  • 85.65 (n)
dog
(Canis familiaris)
Mammalia ARID5B 34 35
  • 85.34 (n)
rat
(Rattus norvegicus)
Mammalia Arid5b 34
  • 85.07 (n)
oppossum
(Monodelphis domestica)
Mammalia ARID5B 35
  • 80 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia ARID5B 35
  • 77 (a)
OneToOne
chicken
(Gallus gallus)
Aves ARID5B 34 35
  • 74.35 (n)
lizard
(Anolis carolinensis)
Reptilia ARID5B 35
  • 67 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia arid5b 34
  • 65.54 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.2075 34
zebrafish
(Danio rerio)
Actinopterygii LOC100536827 34
  • 60.46 (n)
ARID5B 35
  • 48 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG34422 35
  • 8 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SWI1 37
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 16 (a)
OneToMany
Species where no ortholog for ARID5B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for ARID5B Gene

ENSEMBL:
Gene Tree for ARID5B (if available)
TreeFam:
Gene Tree for ARID5B (if available)

Paralogs for ARID5B Gene

Paralogs for ARID5B Gene

genes like me logo Genes that share paralogs with ARID5B: view

Variants for ARID5B Gene

Sequence variations from dbSNP and Humsavar for ARID5B Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type
rs10128383 -- 61,981,154(+) gattg(C/T)tacag intron-variant
rs10128492 -- 61,978,725(+) gactt(C/T)gctga intron-variant
rs10430495 -- 61,961,836(+) TCTGC(C/T)TCCCC intron-variant
rs10430496 -- 61,961,857(+) ATTCT(C/T)CTGCC intron-variant
rs10465962 -- 62,057,494(+) CCGCT(A/G)CATTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ARID5B Gene

Variant ID Type Subtype PubMed ID
dgv464n106 CNV deletion 24896259
esv2191372 CNV deletion 18987734
esv2677112 CNV deletion 23128226
esv2737518 CNV deletion 23290073
esv2737529 CNV deletion 23290073
esv34099 CNV loss 18971310
esv3546396 CNV deletion 23714750
esv3546397 CNV deletion 23714750
esv3623489 CNV loss 21293372
esv3623491 CNV loss 21293372
esv4603 CNV loss 18987735
esv988038 CNV deletion 20482838
nsv1069055 CNV deletion 25765185
nsv1132841 CNV insertion 24896259
nsv1147257 CNV deletion 26484159
nsv24157 CNV deletion 16902084
nsv473069 CNV novel sequence insertion 20440878
nsv831889 CNV loss 17160897
nsv8681 CNV gain 18304495
nsv957018 CNV deletion 24416366

Variation tolerance for ARID5B Gene

Residual Variation Intolerance Score: 5.04% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.52; 43.97% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ARID5B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ARID5B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ARID5B Gene

Disorders for ARID5B Gene

MalaCards: The human disease database

(2) MalaCards diseases for ARID5B Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
lymphoblastic leukemia
  • leukemia, lymphoid
childhood leukemia
- elite association - COSMIC cancer census association via MalaCards

UniProtKB/Swiss-Prot

ARI5B_HUMAN
  • Leukemia, acute lymphoblastic (ALL) [MIM:613065]: A subtype of acute leukemia, a cancer of the white blood cells. ALL is a malignant disease of bone marrow and the most common malignancy diagnosed in children. The malignant cells are lymphoid precursor cells (lymphoblasts) that are arrested in an early stage of development. The lymphoblasts replace the normal marrow elements, resulting in a marked decrease in the production of normal blood cells. Consequently, anemia, thrombocytopenia, and neutropenia occur to varying degrees. The lymphoblasts also proliferate in organs other than the marrow, particularly the liver, spleen, and lymphnodes. {ECO:0000269 PubMed:19684603, ECO:0000269 PubMed:19684604, ECO:0000269 PubMed:20042726, ECO:0000269 PubMed:20054350, ECO:0000269 PubMed:20189245, ECO:0000269 PubMed:20460642, ECO:0000269 PubMed:21098271}. Note=Disease susceptibility is associated with variations affecting the gene represented in this entry.
  • Note=Defects in ARID5B may be a cause of susceptibility to coronary atherosclerosis in the Japanese population.

Relevant External Links for ARID5B

Genetic Association Database (GAD)
ARID5B
Human Genome Epidemiology (HuGE) Navigator
ARID5B
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ARID5B
genes like me logo Genes that share disorders with ARID5B: view

No data available for Genatlas for ARID5B Gene

Publications for ARID5B Gene

  1. Genetic variations of Mrf-2/ARID5B confer risk of coronary atherosclerosis in the Japanese population. (PMID: 18612189) Wang G. … Nagai R. (Int. Heart J. 2008) 3 4 22 46 64
  2. Verification of the susceptibility loci on 7p12.2, 10q21.2, and 14q11.2 in precursor B-cell acute lymphoblastic leukemia of childhood. (PMID: 20042726) Prasad R.B. … Hemminki K. (Blood 2010) 3 4 46 64
  3. ARID5B SNP rs10821936 is associated with risk of childhood acute lymphoblastic leukemia in blacks and contributes to racial differences in leukemia incidence. (PMID: 20054350) Yang W. … Relling M.V. (Leukemia 2010) 3 4 46 64
  4. Germline genomic variants associated with childhood acute lymphoblastic leukemia. (PMID: 19684603) Trevino L.R. … Relling M.V. (Nat. Genet. 2009) 3 4 46 64
  5. Loci on 7p12.2, 10q21.2 and 14q11.2 are associated with risk of childhood acute lymphoblastic leukemia. (PMID: 19684604) Papaemmanuil E. … Houlston R.S. (Nat. Genet. 2009) 3 4 46 64

Products for ARID5B Gene

Sources for ARID5B Gene

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