Aliases for BRD9 Gene

Aliases for BRD9 Gene

  • Bromodomain Containing 9 2 3 5
  • Rhabdomyosarcoma Antigen MU-RMS-40.8 3 4
  • Bromodomain-Containing Protein 9 3 4
  • Sarcoma Antigen NY-SAR-29 3
  • LAVS3040 3
  • FLJ13441 2
  • PRO9856 3
  • BRD9 5

External Ids for BRD9 Gene

Previous GeneCards Identifiers for BRD9 Gene

  • GC05M000916
  • GC05M000852
  • GC05M000854
  • GC05M000857

Summaries for BRD9 Gene

GeneCards Summary for BRD9 Gene

BRD9 (Bromodomain Containing 9) is a Protein Coding gene. Diseases associated with BRD9 include Melkersson-Rosenthal Syndrome and Chronic Dacryoadenitis. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and lysine-acetylated histone binding. An important paralog of this gene is BRD7.

UniProtKB/Swiss-Prot Summary for BRD9 Gene

  • Plays a role in chromatin remodeling and regulation of transcription (PubMed:22464331, PubMed:26365797). Acts as a chromatin reader that recognizes and binds acylated histones: binds histones that are acetylated and/or butyrylated (PubMed:26365797). Component of SWI/SNF chromatin remodeling subcomplex GBAF that carries out key enzymatic activities, changing chromatin structure by altering DNA-histone contacts within a nucleosome in an ATP-dependent manner (PubMed:29374058).

Tocris Summary for BRD9 Gene

  • Bromodomains (BRDs) are epigenetic reader domains that selectively recognize acetylated lysine residues on the tails of histone proteins, and are the only known protein modules that can target acetylated lysine residues.

No data available for Entrez Gene Summary , CIViC Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for BRD9 Gene

Genomics for BRD9 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for BRD9 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around BRD9 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for BRD9

Top Transcription factor binding sites by QIAGEN in the BRD9 gene promoter:
  • ATF6
  • FOXO4
  • GATA-1
  • RORalpha2
  • STAT3

Genomic Locations for BRD9 Gene

Genomic Locations for BRD9 Gene
chr5:850,291-892,803
(GRCh38/hg38)
Size:
42,513 bases
Orientation:
Minus strand
chr5:850,406-892,939
(GRCh37/hg19)
Size:
42,534 bases
Orientation:
Minus strand

Genomic View for BRD9 Gene

Genes around BRD9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
BRD9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for BRD9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for BRD9 Gene

Proteins for BRD9 Gene

  • Protein details for BRD9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H8M2-BRD9_HUMAN
    Recommended name:
    Bromodomain-containing protein 9
    Protein Accession:
    Q9H8M2
    Secondary Accessions:
    • A6NFY8
    • B4DMQ2
    • B4DR93
    • Q2XUS1
    • Q6UWU9
    • Q8IUS4
    • Q9H5Q5
    • Q9H7R9

    Protein attributes for BRD9 Gene

    Size:
    597 amino acids
    Molecular mass:
    67000 Da
    Quaternary structure:
    • Binds acetylated histones H3 and H4 (PubMed:22464331, PubMed:26365797). Binds butyrylated histone H4 (PubMed:26365797). Component of the multiprotein chromatin-remodeling subcomplex SWI/SNF called GBAF, which includes at least BICRA or BICRAL (mutually exclusive), BRD9, SS18, the core BAF subunits, SMARCA2/BRM, SMARCA4/BRG1/BAF190A, ACTL6A/BAF53, SMARCC1/BAF155, and SMARCD1/BAF60A (PubMed:29374058).
    SequenceCaution:
    • Sequence=BAB15565.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};
    Miscellaneous:
    • [Isoform 5]: May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay.

    Three dimensional structures from OCA and Proteopedia for BRD9 Gene

    Alternative splice isoforms for BRD9 Gene

neXtProt entry for BRD9 Gene

Post-translational modifications for BRD9 Gene

  • Ubiquitination at Lys373
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for BRD9 Gene

Domains & Families for BRD9 Gene

Gene Families for BRD9 Gene

Protein Domains for BRD9 Gene

InterPro:
Blocks:
  • Bromodomain signature
ProtoNet:

Suggested Antigen Peptide Sequences for BRD9 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ58589, highly similar to Bromodomain-containing protein 9 (B4DMQ2_HUMAN)
  • cDNA FLJ61450, highly similar to Bromodomain-containing protein 9 (B4DXI2_HUMAN)
  • Rhabdomyosarcoma antigen MU-RMS-40.8 (BRD9_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9H8M2

UniProtKB/Swiss-Prot:

BRD9_HUMAN :
  • The Bromo domain mediates interaction with histones that have acetylated lysine residues at specific positions (PubMed:22464331). Also recognizes and binds histones that are butyrylated (PubMed:26365797).
Domain:
  • The Bromo domain mediates interaction with histones that have acetylated lysine residues at specific positions (PubMed:22464331). Also recognizes and binds histones that are butyrylated (PubMed:26365797).
genes like me logo Genes that share domains with BRD9: view

Function for BRD9 Gene

Molecular function for BRD9 Gene

UniProtKB/Swiss-Prot Function:
Plays a role in chromatin remodeling and regulation of transcription (PubMed:22464331, PubMed:26365797). Acts as a chromatin reader that recognizes and binds acylated histones: binds histones that are acetylated and/or butyrylated (PubMed:26365797). Component of SWI/SNF chromatin remodeling subcomplex GBAF that carries out key enzymatic activities, changing chromatin structure by altering DNA-histone contacts within a nucleosome in an ATP-dependent manner (PubMed:29374058).

Phenotypes From GWAS Catalog for BRD9 Gene

Gene Ontology (GO) - Molecular Function for BRD9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding NAS 18559093
GO:0005515 protein binding IEA,IPI 25416956
GO:0070577 lysine-acetylated histone binding IDA 22464331
genes like me logo Genes that share ontologies with BRD9: view
genes like me logo Genes that share phenotypes with BRD9: view

Animal Model Products

CRISPR Products

miRNA for BRD9 Gene

miRTarBase miRNAs that target BRD9

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for BRD9

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for BRD9 Gene

Localization for BRD9 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 BRD9 gene
Compartment Confidence
nucleus 5
extracellular 2
cytosol 2
plasma membrane 1
cytoskeleton 1
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for BRD9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA 21873635
GO:0016514 SWI/SNF complex IDA 29374058
genes like me logo Genes that share ontologies with BRD9: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for BRD9 Gene

Pathways & Interactions for BRD9 Gene

PathCards logo

SuperPathways for BRD9 Gene

No Data Available

Gene Ontology (GO) - Biological Process for BRD9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006325 chromatin organization IEA --
GO:0006357 regulation of transcription by RNA polymerase II IBA 21873635
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with BRD9: view

No data available for Pathways by source and SIGNOR curated interactions for BRD9 Gene

Drugs & Compounds for BRD9 Gene

No Compound Related Data Available

Transcripts for BRD9 Gene

mRNA/cDNA for BRD9 Gene

9 REFSEQ mRNAs :
15 NCBI additional mRNA sequence :
19 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for BRD9

Alternative Splicing Database (ASD) splice patterns (SP) for BRD9 Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b · 6c ^ 7a · 7b ^ 8a · 8b ^ 9 ^ 10 ^ 11a · 11b ^ 12a · 12b ^ 13a · 13b ^ 14a · 14b ^
SP1: - - - - -
SP2: - -
SP3: - - - -
SP4: - - - -
SP5: - - - - - - -
SP6: - - - -
SP7: - - -
SP8: - - -
SP9:
SP10:
SP11: - - -
SP12: - - - - -
SP13:
SP14: -
SP15: -
SP16: - - - - - -
SP17:
SP18:
SP19: - - -
SP20: -
SP21:

ExUns: 15a · 15b ^ 16a · 16b ^ 17a · 17b ^ 18 ^ 19 ^ 20a · 20b · 20c ^ 21a · 21b ^ 22 ^ 23a · 23b · 23c ^ 24a · 24b ^ 25
SP1: - - - - - - - - -
SP2: - - - - - - - - -
SP3:
SP4:
SP5:
SP6:
SP7:
SP8: -
SP9: - - - -
SP10: - - -
SP11:
SP12:
SP13: - -
SP14:
SP15:
SP16:
SP17:
SP18:
SP19:
SP20:
SP21:

Relevant External Links for BRD9 Gene

GeneLoc Exon Structure for
BRD9

Expression for BRD9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for BRD9 Gene

Protein differential expression in normal tissues from HIPED for BRD9 Gene

This gene is overexpressed in Bone marrow mesenchymal stem cell (57.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for BRD9 Gene



Protein tissue co-expression partners for BRD9 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for BRD9

SOURCE GeneReport for Unigene cluster for BRD9 Gene:

Hs.449278

Evidence on tissue expression from TISSUES for BRD9 Gene

  • Nervous system(4.6)
  • Lung(4.5)
  • Liver(4.3)
  • Skin(2.2)
  • Blood(2.2)
  • Kidney(2.1)
  • Intestine(2)
genes like me logo Genes that share expression patterns with BRD9: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for BRD9 Gene

Orthologs for BRD9 Gene

This gene was present in the common ancestor of animals.

Orthologs for BRD9 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia BRD9 30 31
  • 97.04 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia BRD9 30 31
  • 89.06 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia BRD9 31
  • 87 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia BRD9 30 31
  • 85.66 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Brd9 30
  • 85 (n)
Mouse
(Mus musculus)
Mammalia Brd9 30 17 31
  • 84.76 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia BRD9 31
  • 80 (a)
OneToOne
Chicken
(Gallus gallus)
Aves BRD9 30 31
  • 76.26 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia BRD9 31
  • 84 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia brd9 30
  • 68.89 (n)
Zebrafish
(Danio rerio)
Actinopterygii brd9 30 31
  • 71.07 (n)
OneToOne
zgc55797 30
Fruit Fly
(Drosophila melanogaster)
Insecta CG7154 31
  • 20 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea swsn-9 31
  • 19 (a)
OneToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 31 (a)
OneToMany
Species where no ortholog for BRD9 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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 Vase (Ciona intestinalis)
  • 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 BRD9 Gene

ENSEMBL:
Gene Tree for BRD9 (if available)
TreeFam:
Gene Tree for BRD9 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for BRD9: view image

Paralogs for BRD9 Gene

Paralogs for BRD9 Gene

(2) SIMAP similar genes for BRD9 Gene using alignment to 8 proteins:

  • BRD9_HUMAN
  • B4DXI2_HUMAN
  • C9JBY0_HUMAN
  • F2Z2E8_HUMAN
  • H0YAW8_HUMAN
  • H0YBF1_HUMAN
  • H0YBR9_HUMAN
  • H0YBX9_HUMAN

Pseudogenes.org Pseudogenes for BRD9 Gene

genes like me logo Genes that share paralogs with BRD9: view

Variants for BRD9 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for BRD9 Gene

SNP ID Clinical significance and condition Chr 05 pos Variation AA Info Type
708816 Benign: not provided 886,609(-) C/T NON_CODING_TRANSCRIPT_VARIANT,SYNONYMOUS_VARIANT
728823 Likely Benign: not provided 876,218(-) G/A INTRON_VARIANT
785112 Benign: not provided 865,587(-) T/C INTRON_VARIANT
rs34292369 -. - p.Ala266Thrp.Ala170Thr
rs414349 - p.Ala389Thr

Additional dbSNP identifiers (rs#s) for BRD9 Gene

Structural Variations from Database of Genomic Variants (DGV) for BRD9 Gene

Variant ID Type Subtype PubMed ID
dgv131e203 CNV gain+loss 21179565
dgv198e55 CNV gain 17911159
dgv3195e59 CNV duplication 20981092
dgv5535n100 CNV gain+loss 25217958
dgv5536n100 CNV gain 25217958
dgv5539n100 CNV gain 25217958
dgv5542n100 CNV gain+loss 25217958
dgv5544n100 CNV loss 25217958
dgv5551n100 CNV gain 25217958
dgv910e201 CNV deletion 23290073
dgv9517n54 CNV loss 21841781
esv22775 CNV gain 19812545
esv2759316 CNV gain+loss 17122850
esv33837 CNV gain 17666407
esv3388838 CNV duplication 20981092
esv3575808 CNV gain 25503493
esv3603786 CNV loss 21293372
esv3603787 CNV gain 21293372
nsv10654 CNV gain+loss 18304495
nsv1132601 CNV duplication 24896259
nsv1133013 OTHER inversion 24896259
nsv1147234 OTHER inversion 26484159
nsv428459 CNV gain+loss 18775914
nsv441936 CNV gain 18776908
nsv509043 CNV insertion 20534489
nsv519464 CNV loss 19592680
nsv596629 CNV gain 21841781
nsv596714 CNV gain 21841781
nsv596742 CNV gain 21841781
nsv818308 CNV gain 17921354
nsv822952 CNV gain 20364138
nsv830186 CNV gain 17160897
nsv964814 CNV duplication 23825009
nsv968134 CNV duplication 23825009

Variation tolerance for BRD9 Gene

Residual Variation Intolerance Score: 9.65% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.65; 56.82% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for BRD9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
BRD9

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for BRD9 Gene

Disorders for BRD9 Gene

MalaCards: The human disease database

(5) MalaCards diseases for BRD9 Gene - From: DISEASES

Disorder Aliases PubMed IDs
melkersson-rosenthal syndrome
  • mros; mrs
chronic dacryoadenitis
fissured tongue
  • congenital fissure of tongue
rhabdoid cancer
  • rhabdoid tumor predisposition syndrome 1
nut midline carcinoma
  • nuclear protein in testis midline carcinoma
- elite association - COSMIC cancer census association via MalaCards
Search BRD9 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for BRD9

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
genes like me logo Genes that share disorders with BRD9: view

No data available for UniProtKB/Swiss-Prot and Genatlas for BRD9 Gene

Publications for BRD9 Gene

  1. A Subset of Human Bromodomains Recognizes Butyryllysine and Crotonyllysine Histone Peptide Modifications. (PMID: 26365797) Flynn EM … Cochran AG (Structure (London, England : 1993) 2015) 2 3 4
  2. Glioma tumor suppressor candidate region gene 1 (GLTSCR1) and its paralog GLTSCR1-like form SWI/SNF chromatin remodeling subcomplexes. (PMID: 29374058) Alpsoy A … Dykhuizen EC (The Journal of biological chemistry 2018) 3 4
  3. Histone recognition and large-scale structural analysis of the human bromodomain family. (PMID: 22464331) Filippakopoulos P … Knapp S (Cell 2012) 3 4
  4. 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 41
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4

Products for BRD9 Gene

  • Signalway Proteins for BRD9

Sources for BRD9 Gene