Brd9 bromodomain containing 9 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Brd9provided by MGI
Official Full Name: bromodomain containing 9provided by MGI
Primary source: MGI:MGI:2145317
See related: Ensembl:ENSMUSG00000057649 AllianceGenome:MGI:2145317
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary: Predicted to enable lysine-acetylated histone binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Part of SWI/SNF complex. Is expressed in central nervous system; female reproductive system; and urinary system. Orthologous to human BRD9 (bromodomain containing 9). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in CNS E14 (RPKM 20.2), CNS E18 (RPKM 19.3) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 13 C1; 13 40.15 cM

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	13	NC_000079.7 (74085920..74109014)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	13	NC_000079.6 (73937801..73960895)

Chromosome 13 - NC_000079.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Epigenetic and pharmacological control of pigmentation via Bromodomain Protein 9 (BRD9).
Title: Epigenetic and pharmacological control of pigmentation via Bromodomain Protein 9 (BRD9).
Bromodomain containing 9 (BRD9) regulates transcription for the maintenance of embryonic stem cell (ESC).
Title: A non-canonical BRD9-containing BAF chromatin remodeling complex regulates naive pluripotency in mouse embryonic stem cells.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (5)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables lysine-acetylated histone binding	IBA Inferred from Biological aspect of Ancestor more info
enables lysine-acetylated histone binding	ISO Inferred from Sequence Orthology more info
enables lysine-acetylated histone binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in chromatin remodeling	NAS Non-traceable Author Statement more info	PubMed
involved_in negative regulation of cell differentiation	NAS Non-traceable Author Statement more info	PubMed
involved_in positive regulation of cell population proliferation	NAS Non-traceable Author Statement more info	PubMed
involved_in positive regulation of stem cell population maintenance	NAS Non-traceable Author Statement more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of transcription by RNA polymerase II	NAS Non-traceable Author Statement 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
part_of SWI/SNF complex	ISO Inferred from Sequence Orthology more info
located_in chromatin	NAS Non-traceable Author Statement more info	PubMed
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: bromodomain-containing protein 9

NCBI Reference Sequences (RefSeq)

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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)

NM_001024508.4 → NP_001019679.2 bromodomain-containing protein 9 isoform 1

See identical proteins and their annotated locations for NP_001019679.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

CT010471

Consensus CDS

CCDS36728.1

UniProtKB/TrEMBL

A0A0R4J175

Related

ENSMUSP00000096982.3, ENSMUST00000099384.4

Conserved Domains (2) summary

cd05513
Location:140 → 237

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:274 → 503

DUF3512; Domain of unknown function (DUF3512)
NM_001308041.2 → NP_001294970.1 bromodomain-containing protein 9 isoform 2

See identical proteins and their annotated locations for NP_001294970.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (2) is one amino acid shorter than isoform 1.

Source sequence(s)

CT010471

Consensus CDS

CCDS88482.1

UniProtKB/Swiss-Prot

Q0P669, Q3UQU0, Q5FWH1, Q811F7

Related

ENSMUSP00000152390.2, ENSMUST00000222399.2

Conserved Domains (2) summary

cd05513
Location:140 → 237

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:285 → 464

DUF3512; Domain of unknown function (DUF3512)
NM_001378947.1 → NP_001365876.1 bromodomain-containing protein 9 isoform 3

Status: VALIDATED

Source sequence(s)

CT010471

Conserved Domains (2) summary

cd05513
Location:140 → 237

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:306 → 485

DUF3512; Domain of unknown function (DUF3512)
NM_001378948.1 → NP_001365877.1 bromodomain-containing protein 9 isoform 4

Status: VALIDATED

Source sequence(s)

CT010471

Conserved Domains (2) summary

pfam12024
Location:79 → 258

DUF3512; Domain of unknown function (DUF3512)

cl02556
Location:1 → 30

Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000079.7 Reference GRCm39 C57BL/6J

Range

74085920..74109014

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030247105.1 → XP_030102965.1 bromodomain-containing protein 9 isoform X2

Conserved Domains (2) summary

cd05513
Location:140 → 237

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:274 → 461

DUF3512; Domain of unknown function (DUF3512)
XM_030247103.2 → XP_030102963.1 bromodomain-containing protein 9 isoform X1

Conserved Domains (2) summary

cd05513
Location:140 → 237

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:294 → 481

DUF3512; Domain of unknown function (DUF3512)
XM_036157813.1 → XP_036013706.1 bromodomain-containing protein 9 isoform X6

Conserved Domains (1) summary

pfam12024
Location:59 → 238

DUF3512; Domain of unknown function (DUF3512)
XM_036157814.1 → XP_036013707.1 bromodomain-containing protein 9 isoform X7

Conserved Domains (1) summary

pfam12024
Location:58 → 237

DUF3512; Domain of unknown function (DUF3512)
XM_036157816.1 → XP_036013709.1 bromodomain-containing protein 9 isoform X8

Conserved Domains (1) summary

pfam12024
Location:7 → 186

DUF3512; Domain of unknown function (DUF3512)
XM_030247107.1 → XP_030102967.1 bromodomain-containing protein 9 isoform X5

Related

ENSMUST00000222191.2

Conserved Domains (1) summary

pfam12024
Location:60 → 239

DUF3512; Domain of unknown function (DUF3512)
XM_017315340.1 → XP_017170829.1 bromodomain-containing protein 9 isoform X3

Conserved Domains (2) summary

pfam12024
Location:87 → 316

DUF3512; Domain of unknown function (DUF3512)

cl02556
Location:1 → 30

Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
XM_036157810.1 → XP_036013703.1 bromodomain-containing protein 9 isoform X4

Related

ENSMUST00000220488.2

Conserved Domains (2) summary

pfam12024
Location:78 → 257

DUF3512; Domain of unknown function (DUF3512)

cl02556
Location:1 → 30

Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
XM_036157812.1 → XP_036013705.1 bromodomain-containing protein 9 isoform X5

Conserved Domains (1) summary

pfam12024
Location:60 → 239

DUF3512; Domain of unknown function (DUF3512)
XM_036157817.1 → XP_036013710.1 bromodomain-containing protein 9 isoform X8

Conserved Domains (1) summary

pfam12024
Location:7 → 186

DUF3512; Domain of unknown function (DUF3512)
XM_036157811.1 → XP_036013704.1 bromodomain-containing protein 9 isoform X4

Conserved Domains (2) summary

pfam12024
Location:78 → 257

DUF3512; Domain of unknown function (DUF3512)

cl02556
Location:1 → 30

Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
XM_036157815.1 → XP_036013708.1 bromodomain-containing protein 9 isoform X7

Conserved Domains (1) summary

pfam12024
Location:58 → 237

DUF3512; Domain of unknown function (DUF3512)
XM_006517030.3 → XP_006517093.1 bromodomain-containing protein 9 isoform X5

Conserved Domains (1) summary

pfam12024
Location:60 → 239

DUF3512; Domain of unknown function (DUF3512)
XM_006517029.2 → XP_006517092.1 bromodomain-containing protein 9 isoform X3

Conserved Domains (2) summary

pfam12024
Location:87 → 316

DUF3512; Domain of unknown function (DUF3512)

cl02556
Location:1 → 30

Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.