Detailed information of XP_073257355.1 in Porites lutea

Genomic Location: chr11:20169152...20195313
NR annotation: no NCBI-NR hit recorded
Species Porites lutea · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0007433 (this species only) · gene tree & orthology
Ubiquitin familyUBD|Other|Jab_MPN · all ubiquitin genes in this species
Ubiquitin familyDUB|JAMM|JAMM · all ubiquitin genes in this species

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF01398
all species →
JABJAB1/Mov34/MPN/PAD-1 ubiquitin proteaseFamilyInterproscan
PF18323
all species →
CSN5_CCop9 signalosome subunit 5 C-terminal domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR037518
all species →
DomainMPN domainInterproscan
IPR000555
all species →
DomainJAB1/MPN/MOV34 metalloenzyme domainInterproscan
IPR040961
all species →
DomainCop9 signalosome subunit 5 C-terminal domainInterproscan
IPR050242
all species →
FamilyJAMM/MPN+ metalloenzymes, peptidase M67AInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR10410
all species →
EUKARYOTIC TRANSLATION INITIATION FACTOR 3 -RELATEDInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005515
all species →
Molecular Functionprotein bindingInterproscan
GO:0008233
all species →
Molecular Functionpeptidase activityInterproscan
GO:0008237
all species →
Molecular Functionmetallopeptidase activityInterproscan
GO:0000338
all species →
Biological Processprotein deneddylationInterproscan
GO:0005737
all species →
Cellular ComponentcytoplasmInterproscan
GO:0008180
all species →
Cellular ComponentCOP9 signalosomeInterproscan
GO:0019784
all species →
Molecular FunctiondeNEDDylase activityInterproscan

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
K09613COPS5, CSN5; COP9 signalosome complex subunit 5EC:3.4.-.-
Ubiquitin systemko04121deepkoala

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 Porites lutea 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 Porites lutea, 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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