brd2a bromodomain containing 2a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: brd2aprovided by ZNC
Official Full Name: bromodomain containing 2aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-990415-248
See related: Ensembl:ENSDARG00000022280 AllianceGenome:ZFIN:ZDB-GENE-990415-248
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: brd2; ring3; fe47f02; fi85h05; wu:fe47f02; wu:fi85h05
Summary: Predicted to enable lysine-acetylated histone binding activity and nucleosomal histone binding activity. Acts upstream of or within central nervous system development; regulation of apoptotic process; and thrombocyte differentiation. Predicted to be active in chromatin and nucleus. Is expressed in several structures, including digestive system; immature eye; nervous system; neural tube; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in B-cell lymphoma; B-lymphoblastic leukemia/lymphoma; juvenile myoclonic epilepsy; and photosensitivity disease. Orthologous to human BRD2 (bromodomain containing 2). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 19

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	19	NC_007130.7 (7154500..7170674)
105	previous assembly	GRCz10 (GCF_000002035.5)	19	NC_007130.6 (7235576..7251749)

Chromosome 19 - NC_007130.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

these results suggest an evolutionarily conserved role for Brd2 in the proper formation and/or patterning of segmented tissues, including the vertebrate CNS, where it acts as a bi-modal regulator of apoptosis, and is necessary, directly or indirectly, for proper expression of genes that pattern the MHB and/or regulate differentiation in the anterior hindbrain.
Title: Knockdown of epigenetic transcriptional co-regulator Brd2a disrupts apoptosis and proper formation of hindbrain and midbrain-hindbrain boundary (MHB) region in zebrafish.
brd2a on chromosome 19 exhibits both maternal and zygotic contributions to early development and patterning, analogous to the brd2 ortholog in Drosophila.
Title: Zebrafish brd2a and brd2b are paralogous members of the bromodomain-ET (BET) family of transcriptional coregulators that show structural and expression divergence.
Expression profiles of zebrafish brd2 paralogs support a role in vertebrate developmental patterning and morphogenesis
Title: Zebrafish brd2a and brd2b are paralogous members of the bromodomain-ET (BET) family of transcriptional coregulators that show structural and expression divergence.

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General gene information

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Markers

AW165084 (e-PCR)
- UniSTS:205884

fe47f02.x1 (e-PCR)
- UniSTS:204381

fd36f04.x1 (e-PCR)
- UniSTS:195426

fi80e12.x1 (e-PCR)
- UniSTS:198048

fi85h05.x1 (e-PCR)
- UniSTS:198116

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables lysine-acetylated histone binding	IBA Inferred from Biological aspect of Ancestor more info
enables molecular_function	ND No biological Data available more info

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within hindbrain development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within midbrain-hindbrain boundary development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within spinal cord development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within thrombocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in cellular_component	ND No biological Data available more info
part_of chromatin	IBA Inferred from Biological aspect of Ancestor more info
located_in chromosome	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: bromodomain-containing protein 2; bromodomain-containing protein 2a

Names: bromodomain-containing 2; ring finger protein 3

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_001270571.1 → NP_001257500.1 bromodomain-containing protein 2a isoform 2

See identical proteins and their annotated locations for NP_001257500.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate splice site in the coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N-and C-termini compared to isoform 1.

Source sequence(s)

BC163902, EB772248, FP085392

UniProtKB/TrEMBL

B3DKM5, Q1LWX7

Related

ENSDARP00000139243.1, ENSDART00000160894.2

Conserved Domains (3) summary

cd05497
Location:72 → 178

Bromo_Brdt_I_like; Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...

cd05498
Location:383 → 484

Bromo_Brdt_II_like; Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...

pfam17035
Location:672 → 734

BET; Bromodomain extra-terminal - transcription regulation
NM_131200.2 → NP_571275.2 bromodomain-containing protein 2a isoform 1

See identical proteins and their annotated locations for NP_571275.2

Status: VALIDATED

Description

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

Source sequence(s)

BC163902, EB772248, FP085392

UniProtKB/TrEMBL

A0A8N1TTX0, A8CYR1

Related

ENSDARP00000038787.6, ENSDART00000035967.8

Conserved Domains (3) summary

cd05497
Location:72 → 178

Bromo_Brdt_I_like; Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...

cd05498
Location:383 → 484

Bromo_Brdt_II_like; Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...

pfam17035
Location:676 → 738

BET; Bromodomain extra-terminal - transcription regulation

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007130.7 Reference GRCz11 Primary Assembly

Range

7154500..7170674

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021467982.1 → XP_021323657.1 bromodomain-containing protein 2 isoform X1

UniProtKB/TrEMBL

A0A8M9P1P2

Conserved Domains (2) summary

cd05497
Location:72 → 178

Bromo_Brdt_I_like; Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...

cd05498
Location:383 → 477

Bromo_Brdt_II_like; Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...