Detailed information of ENSSYXP00000025474.1 in Micromussa lordhowensis

Genomic Location: chr1:25586426...25588029
NR annotation: XP_020629280.1, LOW QUALITY PROTEIN: pinopsin-like [Orbicella faveolata]
Species Micromussa lordhowensis · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
O15974Rhodopsin, G0-coupled OS=Mizuhopecten yessoensis OX=6573 GN=SCOP2 PE=1 SV=1
Q804X9Melanopsin-A OS=Gadus morhua OX=8049 GN=opn4a PE=2 SV=1
O42266Parapinopsin OS=Ictalurus punctatus OX=7998 PE=2 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0000378 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00001
all species →
7tm_17 transmembrane receptor (rhodopsin family)FamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR027430
all species →
Binding_siteVisual pigments (opsins) retinal binding siteInterproscan
IPR000276
all species →
FamilyG protein-coupled receptor, rhodopsin-likeInterproscan
IPR050125
all species →
FamilyG-protein coupled receptor opsinsInterproscan
IPR017452
all species →
DomainGPCR, rhodopsin-like, 7TMInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR24240
all species →
OPSINInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0004930
all species →
Molecular FunctionG protein-coupled receptor activityInterproscan
GO:0007186
all species →
Biological ProcessG protein-coupled receptor signaling pathwayInterproscan
GO:0016020
all species →
Cellular ComponentmembraneInterproscan
GO:0001750
all species →
Cellular Componentphotoreceptor outer segmentInterproscan
GO:0005887
all species →
Cellular Componentplasma membraneInterproscan
GO:0007602
all species →
Biological ProcessphototransductionInterproscan
GO:0008020
all species →
Molecular FunctionG protein-coupled photoreceptor activityInterproscan
GO:0071482
all species →
Biological Processcellular response to light stimulusInterproscan

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 ENSSYXP00000025474.1.

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 Micromussa lordhowensis 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 Micromussa lordhowensis, 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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