Detailed information of BRAKERYMEP00000030195.1 in Astreopora myriophthalma

Genomic Location: BLFK01000874.1:1197376...1203519
NR annotation: XP_015756973.1, PREDICTED: chromobox protein homolog 1-like [Acropora digitifera]
Species Astreopora myriophthalma · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
P29227Heterochromatin protein 1 OS=Drosophila virilis OX=7244 GN=HP1A PE=3 SV=1
P45973Chromobox protein homolog 5 OS=Homo sapiens OX=9606 GN=CBX5 PE=1 SV=1
P05205Heterochromatin protein 1 OS=Drosophila melanogaster OX=7227 GN=Su(var)205 PE=1 SV=2
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0001991 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00385
all species →
ChromoChromo (CHRromatin Organisation MOdifier) domainDomainInterproscan
PF01393
all species →
Chromo_shadowChromo shadow domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR023780
all species →
DomainChromo domainInterproscan
IPR000953
all species →
DomainChromo/chromo shadow domainInterproscan
IPR051219
all species →
FamilyHeterochromatin-associated chromo domain-containing proteinInterproscan
IPR008251
all species →
DomainChromo shadow domainInterproscan
IPR017984
all species →
DomainChromo domain subgroupInterproscan
IPR016197
all species →
Homologous_superfamilyChromo-like domain superfamilyInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR22812
all species →
CHROMOBOX PROTEINInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0000122
all species →
Biological Processnegative regulation of transcription by RNA polymerase IIInterproscan
GO:0003682
all species →
Molecular Functionchromatin bindingInterproscan
GO:0005721
all species →
Cellular Componentpericentric heterochromatinInterproscan
GO:0006325
all species →
Biological Processchromatin organizationInterproscan
GO:0035064
all species →
Molecular Functionmethylated histone bindingInterproscan
GO:0005634
all species →
Cellular ComponentnucleusInterproscan

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
No KEGG orthology assignment for BRAKERYMEP00000030195.1.

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.

AnalysisWhat it doesStatus
Primer designDesign PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.template foundopen →
BLASTSearch 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 foundopen →
Expression heatmapDraw 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 / orthogroupLook 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 analysisStart a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.open →
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