Detailed information of ENSSYXP00000024549.1 in Micromussa lordhowensis

Genomic Location: chr1:37578562...37603328
NR annotation: CAH3017576.1, unnamed protein product [Porites evermanni]
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
Q8CIE6Coatomer subunit alpha OS=Mus musculus OX=10090 GN=Copa PE=1 SV=2
P53621Coatomer subunit alpha OS=Homo sapiens OX=9606 GN=COPA PE=1 SV=2
Q27954Coatomer subunit alpha OS=Bos taurus OX=9913 GN=COPA PE=1 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0004731 (this species only) · gene tree & orthology
Ubiquitin familyUBD|Other|Beta-prp · all ubiquitin genes in this species
Ubiquitin familyE3|E3 adaptor Cullin RING|CDC20 · all ubiquitin genes in this species
Ubiquitin familyE3|E3 adaptor Cullin RING|DWD · all ubiquitin genes in this species

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00400
all species →
WD40WD domain, G-beta repeatRepeatInterproscan
PF04053
all species →
Coatomer_WDADCoatomer WD associated region RepeatInterproscan
PF06957
all species →
COPI_CCoatomer (COPI) alpha subunit C-terminusRepeatInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR001680
all species →
RepeatWD40 repeatInterproscan
IPR047312
all species →
DomainCoatomer subunit alpha, WD Associated RegionInterproscan
IPR015943
all species →
Homologous_superfamilyWD40/YVTN repeat-like-containing domain superfamilyInterproscan
IPR016391
all species →
FamilyCoatomer subunit alphaInterproscan
IPR006692
all species →
DomainCoatomer, WD associated regionInterproscan
IPR019775
all species →
Conserved_siteWD40 repeat, conserved siteInterproscan
IPR020472
all species →
RepeatG-protein beta WD-40 repeatInterproscan
IPR050844
all species →
FamilyCoatomer complex subunitInterproscan
IPR036322
all species →
Homologous_superfamilyWD40-repeat-containing domain superfamilyInterproscan
IPR010714
all species →
DomainCoatomer, alpha subunit, C-terminalInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR19876
all species →
COATOMERInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005515
all species →
Molecular Functionprotein bindingInterproscan
GO:0006886
all species →
Biological Processintracellular protein transportInterproscan
GO:0006888
all species →
Biological Processendoplasmic reticulum to Golgi vesicle-mediated transportInterproscan
GO:0030126
all species →
Cellular ComponentCOPI vesicle coatInterproscan
GO:0005198
all species →
Molecular Functionstructural molecule activityInterproscan
GO:0016192
all species →
Biological Processvesicle-mediated transportInterproscan
GO:0030117
all species →
Cellular Componentmembrane coatInterproscan
GO:0006890
all species →
Biological Processretrograde vesicle-mediated transport, Golgi to endoplasmic reticulumInterproscan
GO:0006891
all species →
Biological Processintra-Golgi vesicle-mediated transportInterproscan

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
KOEnzymeEnzyme IDPathwayMap IDSource
K05236COPA, RET1; coatomer subunit alpha-Exosomeko04147deepkoala

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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