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    BRD9 bromodomain containing 9 [ Homo sapiens (human) ]

    Gene ID: 65980, updated on 27-Nov-2024

    Summary

    Official Symbol
    BRD9provided by HGNC
    Official Full Name
    bromodomain containing 9provided by HGNC
    Primary source
    HGNC:HGNC:25818
    See related
    Ensembl:ENSG00000028310 MIM:618465; AllianceGenome:HGNC:25818
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    PRO9856; SMARCI2; LAVS3040
    Summary
    Enables lysine-acetylated histone binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Located in nucleoplasm. Part of SWI/SNF complex. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in testis (RPKM 6.5), lymph node (RPKM 4.8) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See BRD9 in Genome Data Viewer
    Location:
    5p15.33
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (863741..892801, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (769793..798853, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (863856..892916, complement)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene zinc finger DHHC-type containing 11B Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:771879-772522 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_86882 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:782879-783538 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:785123-785861 Neighboring gene bromodomain containing 9 pseudogene 2 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr5:794321-795181 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:811555-811724 Neighboring gene zinc finger DHHC-type containing 11 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr5:827809-828355 Neighboring gene signal peptidase complex subunit 2 pseudogene 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22302 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:849793-850444 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:850445-851094 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:892285-892917 Neighboring gene Sharpr-MPRA regulatory region 1606 Neighboring gene thyroid hormone receptor interactor 13 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:916909-917478 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:918895-919438 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr5:919439-919982 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15879 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:929600-929776 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22303 Neighboring gene uncharacterized LOC124900931 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22304

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Genome-wide association study identifies multiple susceptibility loci for pancreatic cancer.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ43530, DKFZp434D0711, DKFZp686L0539

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables lysine-acetylated histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables lysine-acetylated histone binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables nucleic acid binding NAS
    Non-traceable Author Statement
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of GBAF complex NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of SWI/SNF complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in chromatin NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    bromodomain-containing protein 9
    Names
    rhabdomyosarcoma antigen MU-RMS-40.8
    sarcoma antigen NY-SAR-29

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001009877.3NP_001009877.2  bromodomain-containing protein 9 isoform 2

      See identical proteins and their annotated locations for NP_001009877.2

      Status: VALIDATED

      Source sequence(s)
      AC122719
      Consensus CDS
      CCDS34128.2
      UniProtKB/Swiss-Prot
      Q9H8M2
      UniProtKB/TrEMBL
      B4DXI2
      Related
      ENSP00000419845.1, ENST00000483173.5
      Conserved Domains (2) summary
      pfam12024
      Location:221450
      DUF3512; Domain of unknown function (DUF3512)
      cl02556
      Location:102184
      Bromodomain; Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
    2. NM_001317951.2NP_001304880.1  bromodomain-containing protein 9 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AK023503, AK299157
      UniProtKB/Swiss-Prot
      Q9H8M2
      Conserved Domains (2) summary
      cd05513
      Location:24121
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:178407
      DUF3512; Domain of unknown function (DUF3512)
    3. NM_001375861.1NP_001362790.1  bromodomain-containing protein 9 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC122719
      Conserved Domains (2) summary
      cd05513
      Location:140237
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:294553
      DUF3512; Domain of unknown function (DUF3512)
    4. NM_001375862.1NP_001362791.1  bromodomain-containing protein 9 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC122719
      Conserved Domains (2) summary
      cd05513
      Location:140237
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:319544
      DUF3512; Domain of unknown function (DUF3512)
    5. NM_001375863.1NP_001362792.1  bromodomain-containing protein 9 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC122719
      Conserved Domains (2) summary
      cd05513
      Location:142239
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:296525
      DUF3512; Domain of unknown function (DUF3512)
    6. NM_001375877.1NP_001362806.1  bromodomain-containing protein 9 isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC122719
      Conserved Domains (2) summary
      cd05513
      Location:140237
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:294523
      DUF3512; Domain of unknown function (DUF3512)
    7. NM_001375878.1NP_001362807.1  bromodomain-containing protein 9 isoform 8

      Status: VALIDATED

      Source sequence(s)
      AC122719
      Conserved Domains (2) summary
      cd05513
      Location:142239
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:276505
      DUF3512; Domain of unknown function (DUF3512)
    8. NM_001375879.1NP_001362808.1  bromodomain-containing protein 9 isoform 9

      Status: VALIDATED

      Source sequence(s)
      AC122719
      Conserved Domains (2) summary
      cd05513
      Location:140237
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:273502
      DUF3512; Domain of unknown function (DUF3512)
    9. NM_023924.5NP_076413.3  bromodomain-containing protein 9 isoform 1

      See identical proteins and their annotated locations for NP_076413.3

      Status: VALIDATED

      Source sequence(s)
      AK023503, AK026830, AK299157
      Consensus CDS
      CCDS34127.2
      UniProtKB/Swiss-Prot
      A6NFY8, B4DMQ2, B4DR93, Q2XUS1, Q6UWU9, Q8IUS4, Q9H5Q5, Q9H7R9, Q9H8M2
      Related
      ENSP00000419765.1, ENST00000467963.6
      Conserved Domains (2) summary
      cd05513
      Location:140237
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:274503
      DUF3512; Domain of unknown function (DUF3512)

    RNA

    1. NR_184208.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC122719
      Related
      ENST00000489816.5
    2. NR_184210.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC122719
      Related
      ENST00000495265.5

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000005.10 Reference GRCh38.p14 Primary Assembly

      Range
      863741..892801 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047417605.1XP_047273561.1  bromodomain-containing protein 9 isoform X10

    2. XM_024446198.2XP_024301966.1  bromodomain-containing protein 9 isoform X9

      Conserved Domains (2) summary
      pfam12024
      Location:100329
      DUF3512; Domain of unknown function (DUF3512)
      cl02556
      Location:163
      Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
    3. XM_024446200.2XP_024301968.1  bromodomain-containing protein 9 isoform X8

      Conserved Domains (2) summary
      pfam12024
      Location:120349
      DUF3512; Domain of unknown function (DUF3512)
      cl02556
      Location:163
      Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
    4. XM_024446199.2XP_024301967.1  bromodomain-containing protein 9 isoform X7

      Conserved Domains (2) summary
      cd05513
      Location:24121
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:158387
      DUF3512; Domain of unknown function (DUF3512)
    5. XM_047417600.1XP_047273556.1  bromodomain-containing protein 9 isoform X1

    6. XM_024446195.2XP_024301963.1  bromodomain-containing protein 9 isoform X1

      Conserved Domains (2) summary
      cd05513
      Location:140237
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:294523
      DUF3512; Domain of unknown function (DUF3512)
    7. XM_047417602.1XP_047273558.1  bromodomain-containing protein 9 isoform X4

    8. XM_047417601.1XP_047273557.1  bromodomain-containing protein 9 isoform X2

    9. XM_047417604.1XP_047273560.1  bromodomain-containing protein 9 isoform X6

    10. XM_047417603.1XP_047273559.1  bromodomain-containing protein 9 isoform X5

    11. XM_024446196.2XP_024301964.1  bromodomain-containing protein 9 isoform X3

      Conserved Domains (2) summary
      cd05513
      Location:140237
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:294481
      DUF3512; Domain of unknown function (DUF3512)
    12. XM_047417606.1XP_047273562.1  bromodomain-containing protein 9 isoform X12

    13. XM_006714494.4XP_006714557.1  bromodomain-containing protein 9 isoform X11

      Conserved Domains (2) summary
      cd05513
      Location:140237
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:294342
      DUF3512; Domain of unknown function (DUF3512)

    RNA

    1. XR_007058631.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060929.1 Alternate T2T-CHM13v2.0

      Range
      769793..798853 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054353266.1XP_054209241.1  bromodomain-containing protein 9 isoform X10

    2. XM_054353267.1XP_054209242.1  bromodomain-containing protein 9 isoform X8

    3. XM_054353265.1XP_054209240.1  bromodomain-containing protein 9 isoform X9

    4. XM_054353264.1XP_054209239.1  bromodomain-containing protein 9 isoform X7

    5. XM_054353258.1XP_054209233.1  bromodomain-containing protein 9 isoform X1

    6. XM_054353257.1XP_054209232.1  bromodomain-containing protein 9 isoform X1

    7. XM_054353261.1XP_054209236.1  bromodomain-containing protein 9 isoform X4

    8. XM_054353259.1XP_054209234.1  bromodomain-containing protein 9 isoform X2

    9. XM_054353263.1XP_054209238.1  bromodomain-containing protein 9 isoform X6

    10. XM_054353262.1XP_054209237.1  bromodomain-containing protein 9 isoform X5

    11. XM_054353260.1XP_054209235.1  bromodomain-containing protein 9 isoform X3

    12. XM_054353269.1XP_054209244.1  bromodomain-containing protein 9 isoform X12

    13. XM_054353268.1XP_054209243.1  bromodomain-containing protein 9 isoform X11