Gene detail

Detailed information of BRAKERYMEP00000007212.1 in Astreopora myriophthalma

Genomic Location: BLFK01000192.1:604922...622151
NR annotation: XP_020629236.1, bromodomain-containing protein 3-like isoform X4 [Orbicella faveolata]
Species Astreopora myriophthalma · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERYMET00000007212

ATGGTCATTGCCTTCGTACGTAAAGAGACGATACCAAAGTTTTATATATGGCCCAGCGCAGCTTTACAGTCTGGTCTCAGTAATGAACATAACTCTGATGATTCATTGAATGGATTGCGTTCAGAGACGAGCCCTGAGGGGCTCGGGAAGCGAGTAAGGCGCTTATCACACAAGTACGACGATTTTGAACAACAAACAGTGCGAGGAATGGCTCAAACTCCGAGCACGGGCCAAGAACCTAAAAGTGTTCGAACTACCAACCAACTGCAGTATTTGTCGAAAACAATCATGAAAGCAATGTGGCGGCATCCATATGCCTGGCCGTTTCACGAGCCTGTGGACGCTGAGAAACTGAATTTACCGGATTACTACACCATCATAAAGCAACCTATGGACATGTCTCAGATCAAGAAGAAACTAGAAAACCACGAGTATTCTTGTAGTCAGGAGTGTATTGATGATTTTCGTCTCATGTTCAATAATTGCATTACATACAACAAGCCTGGAGAGGATGTGGTGCTAATGTGTCAGGCAATGGAGAAAGTGTTCAATCAAAAACTTGCTACCATGCCTCCTGAGGAGTATGAAATGACATTAGGACCTAAAAAGAAAGCAGAACCAGCAGGACCAGCAGCTAAGAGAGCTAAGAGAGGTGTATCAGCAGTCAAAATGGAGCAGACACCAGTTGCTCCTGATAGCACTCCCATGATGAGCTTGCCATATCCTACCCCACCAGTTTCTGTAACAGCCACAACAGCACTTCCAACTCCAGTGGATGCAACTACTGTGCTGCCAAAACCCACTATTTCTGCTGCCCCTGCCTTACCTTCTGCTGTTCAACCTGCTAAGGTCAAAAAAGGGGTGAAAAGAAAAGCTGACACAACAACTCCCACAACACCCATAAGTGGAATAGTGGAACCGCCTCTCccgataaaaacaaaagcagctaAAATACCAGCTCGGAGGGAGTCAACACGAACAGTGAAAAAACCAAATCGTGATTTACCTGAAGAACCtcaaatgGCTCGTGGTAAGAAGAAACCATTATCGGAGCAGCTTAGATACTGCAGCAACATCATCAAGGAATTGTTTTCCAAGAAACATGCGGCATATGCTTGGCCATTTTACAAGCCTGTTGATGCTACTGCACTTGGATTACATGACTATCATGATATCATCAAGCAGCCAATGGATATGGGTACAATAAAGGCAAAAATGGAAGGAAGAGAGTACAATTCATCGTCTGAATTCGCTGCTGATGTTCGTCTCATGTTTAGCAACTGTTACAGATACAATCCTCCAGATCATGATGTTGTCAAAATGGCAAGGCAACTACagGatgtttttgaaatgaaatttgccaaaatgcCCGAGGAACCAGAGCTTCCTCCTCCGCCAGTGGTAGAACCTGCTGAACCTGAGCCAGAGTCTGCTGCCACTCCGCTGTCATCCTCACCTGCTTCTGAAGACAATGAGAATGACAGGGCTGAGCAACTGTCTCAGCTTCAGCAGCAGCTGATATCCGTCCACGAGCAACTGAGCAAGTTAACTGGTGAAACTGTTATTGTGACAAATAAGACTAAgaagaagcctgagaaaaaaGTTCCTGCCAAAAAAGAAGCCAAGCAAGCACCCTCCTCACAGCCAAAAAGTCAACCCAAACAGAAGTCATCAGGAAAAGCACAGACAGCACAAGTTCAACCAAAAGCTGAAAAGCCTGCAAAGAAACAGTCGGCATCCAAGCGATCTGCAAATAGCAAGATGgcagccaaaaagaaaacaatggagGTCGATAGTGACGATGAAGAGGATACTGCCAGACCTATGACGTACGATGAAAAAAGACAGCTCAGCCTTGACATCAACAAGCTTCCAGGTGACAAGTTAGGAAGAGTGGTGAACATCATCCAGTCTAGGGAACCTGGCCTGAGGGATTCTAACCcagatgaaattgaaattgactttgaaacactaaaaccaTCAACCCTGagagaacttgaaaaatatgTTCAACAATGCTTGCGGAAAAAGGTCAAACCTCAAACTAAGAAGGCTAAGAATGCAGAAGAAAGAGAAATGGAACAGGCTAAAAAGAAGGAGGAACTTGAACGAAGGCTTCAGGATGTTAGTGGCAAGCTTGGAGGCACAGGACAAAAGAAGCAGACTAAGAAAGAATCACAGCGGCCTGATCACTCCGTTGTAGATGTTGTAGGCAGCGAGCCTCGCCCATCAAGATTAAGTGAAAGCAGCAGTAGTAGTGGAAGTGGTTCAAGCAGTAGTTCTGATTCGAGTTCAAGCTCTGGCTCTTCTAGTTCAGCAAGCAGCTCTGACTCTGAATCAGAGTCTGGTGGTTTGACCCACAAGACTTCTTCTCACAGTACTAGCAAGACCAAGTCTGCTGGGCACTCGTCGAAGGCGACACCAACGCCGTCCAAACCAGTAGTAGCAAGTCTTGTGACCCAGCCTGcTGCACCGCCTCCCAAGCATTCTCCAGTAATTAAACAAGAAAAACCTGCTGTATCAAGTGTTGTGTCCACCACAGCTTTACCAACACCAGTGACAAGTGATATCCCAGCAGCTGCAAGTTTTGCACCACCTAGACCTGCTAAAGCAGCAGCTCCAAGTGTACCTGCAGCAACACCCAAGCTTCCAGCCAAACCAGCTACAGTGCACAAGCCTATACCTACCAGCACAACTGTCACACCCAAGCAAGCTGTTGCATCATTTGCAAGAAGTACAGCTACAAGTAAACCTCTTGCTGCCATTACACCTGTCAGTGCCACAGCTACAGCATTGCTGAAAGATAAGACGCCAGCTTCTAGTGTAGAGAAACCTTTGACAGCATCTTCAAAATCAGGTAGTAGTGGTTTGACATTTAACATTGGAGAATTACCAGGTTCATTGGCATCCATTGGGCAAAAGAGTGACACTCAAACCACTAAAAAGGATTCAGTGCCCAAGCAATTTCGTCAAGTACCCTCGTGGTCCAACCTTACGACTACTTCAAGTTCTTCTCTCTCCCGACCTGTGTCATCTGCAAGCagctttgaaaagtttaaacAGCAGGCAAGGGACAAGGAAGAGAGGAAATTTTTCTCTATGGGTCTCCAACAGGAAAAAAGCCTGAAGGCAGAGGAAGAACAAAGACGACAACAGAGGGAACGATTAGAAATGGAGAAAGTTCGACTTGCTGAGGAAAGAAAAAGGGAAAAGGAGGAAGATGAAGCATTGGAACAAGCAAGGCAGCTCAAGGAGCAAGAACATGCTAAGCAAACACAGAAGATGAAAATAGAACGAATGAGGGAGGCAGAACGAAGACGAAGAGAAGCTTTGGCTGGTACCATTGATATGAACCAACAAAGTGACATAATGGCAGAGTTTGAAGGAACAATGAGTTGA

Transcript

BRAKERYMET00000007212

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5TJG6	Bromodomain-containing protein 2 OS=Canis lupus familiaris OX=9615 GN=BRD2 PE=3 SV=1
Q32S26	Bromodomain-containing protein 2 OS=Bos taurus OX=9913 GN=BRD2 PE=3 SV=1
Q7JJ13	Bromodomain-containing protein 2 OS=Mus musculus OX=10090 GN=Brd2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002579 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17035 all species →	BET	Bromodomain extra-terminal - transcription regulation	Domain	Interproscan
PF17105 all species →	BRD4_CDT	C-terminal domain of bromodomain protein 4	Family	Interproscan
PF00439 all species →	Bromodomain	Bromodomain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027353 all species →	Domain	NET domain	Interproscan
IPR038336 all species →	Homologous_superfamily	NET domain superfamily	Interproscan
IPR001487 all species →	Domain	Bromodomain	Interproscan
IPR036427 all species →	Homologous_superfamily	Bromodomain-like superfamily	Interproscan
IPR018359 all species →	Conserved_site	Bromodomain, conserved site	Interproscan
IPR031354 all species →	Domain	Bromodomain protein 4, C-terminal	Interproscan
IPR043508 all species →	Domain	Brdt, bromodomain, repeat I	Interproscan
IPR043509 all species →	Domain	Brdt, bromodomain, repeat II	Interproscan
IPR050935 all species →	Family	Bromodomain-containing chromatin reader	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22880 all species →	FALZ-RELATED BROMODOMAIN-CONTAINING PROTEINS	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000785 all species →	Cellular Component	chromatin	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006338 all species →	Biological Process	chromatin remodeling	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0070577 all species →	Molecular Function	lysine-acetylated histone binding	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K08871	BRD2; bromodomain-containing protein 2	-	Chromosome and associated proteins	ko03036	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Co-expression network

Genes whose expression across the transcriptome samples of Astreopora myriophthalma tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Astreopora myriophthalma, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →