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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
  • Sarcoma Antigen NY-SAR-29 3
  • LAVS3040 3
  • PRO9856 3

External Ids for BRD9 Gene

Previous GeneCards Identifiers for BRD9 Gene

  • GC05M000916

Summaries for BRD9 Gene

GeneCards Summary for BRD9 Gene

BRD9 (Bromodomain Containing 9) is a Protein Coding gene. 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 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).

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.

Additional gene information for BRD9 Gene

No data available for Entrez Gene Summary , CIViC summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for BRD9 Gene

Genomics for BRD9 Gene

GeneHancer (GH) Regulatory Elements for BRD9 Gene

Promoters and enhancers for BRD9 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05I000890 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 569.9 +0.5 510 4.2 HDGF PKNOX1 SMAD1 ARNT ARID4B SIN3A DMAP1 POLR2B ZNF207 ZNF143 BRD9 TRIP13 LOC100132773 EXOC3 SLC9A3-AS1 SLC9A3 GC05P000886
GH05I001199 Promoter/Enhancer 2 EPDnew FANTOM5 ENCODE dbSUPER 35.2 -309.7 -309672 6.5 HDGF PKNOX1 ARNT ARID4B ZBTB7B POLR2B ZNF766 E2F8 MCM3 MCM5 SLC6A19 BRD9 LOC100132773 LOC100421419 SLC6A18 EXOC3 CTD-3080P12.3 ENSG00000271119 CCDC127 ENSG00000250173
GH05I001798 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 28.8 -907.9 -907918 4.1 HDGF PKNOX1 CLOCK SMAD1 FOXA2 MLX ARNT ARID4B SIN3A FEZF1 MRPL36 NDUFS6 GC05P001799 SDHAP3 BRD9 LOC100132773 LOC728613 ENSG00000271119
GH05I000505 Enhancer 0.9 ENCODE dbSUPER 54.9 +386.4 386387 1.3 USF1 ZFP64 ZNF140 ZNF266 ZNF697 E2F1 ZNF547 ZNF433 ZNF680 ZNF687 BRD9 LOC100421419 EXOC3 CEP72 SLC9A3-AS1 ZDHHC11B EXOC3-AS1 ENSG00000250385 GC05P000482 SLC9A3
GH05I001117 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 26.2 -225.9 -225913 1.9 PKNOX1 MLX ARID4B ETS1 YY1 TCF12 GLIS2 FOS RXRA SP5 BRD9 SLC12A7 LOC100132773 LOC100421419 EXOC3 ENSG00000250173 CTD-3080P12.3 GC05P001123 LOC105374612
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around BRD9 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the BRD9 gene promoter:

Genomic Locations for BRD9 Gene

Genomic Locations for BRD9 Gene
chr5:850,291-892,824
(GRCh38/hg38)
Size:
42,534 bases
Orientation:
Minus strand
chr5:850,406-892,939
(GRCh37/hg19)

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).
    SequenceCaution:
    • Sequence=BAB15565.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    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 posLast=277277
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for BRD9 Gene

Domains & Families for BRD9 Gene

Gene Families for BRD9 Gene

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

Protein Domains for BRD9 Gene

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).

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 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

miRNA for BRD9 Gene

miRTarBase miRNAs that target BRD9

Clone Products

  • Addgene plasmids 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 4
extracellular 2
cytosol 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:0005575 cellular_component ND --
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

No Data Available

Gene Ontology (GO) - Biological Process for BRD9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0008150 biological_process ND --
GO:0016569 covalent chromatin modification IEA --
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

Unigene Clusters for BRD9 Gene

Bromodomain containing 9:
Representative Sequences:

Clone Products

  • Addgene plasmids 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
ECgene alternative splicing isoforms for
BRD9

Expression for BRD9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP 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, PaxDb, MaxQB, and MOPED for BRD9 Gene



Protein tissue co-expression partners for BRD9 Gene

NURSA nuclear receptor signaling pathways regulating expression of BRD9 Gene:

BRD9

SOURCE GeneReport for Unigene cluster for BRD9 Gene:

Hs.449278

Evidence on tissue expression from TISSUES for BRD9 Gene

  • Nervous system(4.5)
  • Lung(4.4)
  • Liver(4.2)
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 33 34
  • 97.04 (n)
dog
(Canis familiaris)
Mammalia BRD9 33 34
  • 89.06 (n)
oppossum
(Monodelphis domestica)
Mammalia BRD9 34
  • 87 (a)
OneToOne
cow
(Bos Taurus)
Mammalia BRD9 33 34
  • 85.66 (n)
rat
(Rattus norvegicus)
Mammalia Brd9 33
  • 85 (n)
mouse
(Mus musculus)
Mammalia Brd9 33 16 34
  • 84.76 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia BRD9 34
  • 80 (a)
OneToOne
chicken
(Gallus gallus)
Aves BRD9 33 34
  • 76.26 (n)
lizard
(Anolis carolinensis)
Reptilia BRD9 34
  • 84 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia brd9 33
  • 68.89 (n)
zebrafish
(Danio rerio)
Actinopterygii brd9 33 34
  • 71.07 (n)
zgc55797 33
fruit fly
(Drosophila melanogaster)
Insecta CG7154 34
  • 20 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea swsn-9 34
  • 19 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 31 (a)
OneToMany
Species where no ortholog for BRD9 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 BRD9 Gene

ENSEMBL:
Gene Tree for BRD9 (if available)
TreeFam:
Gene Tree for BRD9 (if available)

Paralogs for BRD9 Gene

Paralogs for BRD9 Gene

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

Pseudogenes.org Pseudogenes for BRD9 Gene

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

Variants for BRD9 Gene

Sequence variations from dbSNP and Humsavar for BRD9 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000099469 -- 892,611(-) T/C 5_prime_UTR_variant, coding_sequence_variant, genic_upstream_transcript_variant, missense_variant, upstream_transcript_variant
rs1000192567 -- 894,648(-) T/C upstream_transcript_variant
rs1000216500 -- 882,318(-) A/G genic_downstream_transcript_variant, intron_variant
rs1000422709 -- 868,584(-) G/A genic_downstream_transcript_variant, intron_variant
rs1000474921 -- 868,783(-) T/C genic_downstream_transcript_variant, intron_variant

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

Additional Disease Information for BRD9

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for BRD9 Gene.

No data available for MalaCards , 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 58
  2. Histone recognition and large-scale structural analysis of the human bromodomain family. (PMID: 22464331) Filippakopoulos P … Knapp S (Cell 2012) 3 4 58
  3. 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 44 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58

Products for BRD9 Gene

  • Addgene plasmids for BRD9

Sources for BRD9 Gene

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