Detailed information of ANN25645-RA in Montipora grisea

Genomic Location: Scaffold_123__1_contigs__length_216336:10261...14279
NR annotation: KAG1647855.1, UvrABC system protein C [Nymphon striatum]
Species Montipora grisea · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
A0M672UvrABC system protein C OS=Christiangramia forsetii (strain DSM 17595 / CGMCC 1.15422 / KT0803) OX=411154 GN=uvrC PE=3 SV=1
A6GW65UvrABC system protein C OS=Flavobacterium psychrophilum (strain ATCC 49511 / DSM 21280 / CIP 103535 / JIP02/86) OX=402612 GN=uvrC PE=3 SV=1
A5FM03UvrABC system protein C OS=Flavobacterium johnsoniae (strain ATCC 17061 / DSM 2064 / JCM 8514 / BCRC 14874 / CCUG 350202 / NBRC 14942 / NCIMB 11054 / UW101) OX=376686 GN=uvrC PE=3 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0015366 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF01541
all species →
GIY-YIGGIY-YIG catalytic domainDomainInterproscan
PF01734
all species →
PatatinPatatin-like phospholipaseFamilyInterproscan
PF19143
all species →
Omp85_2OMP85 superfamilyDomainInterproscan
PF08459
all species →
UvrC_RNaseH_domUvrC RNAse H endonuclease domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR000305
all species →
DomainGIY-YIG endonucleaseInterproscan
IPR050066
all species →
FamilyUvrABC system protein CInterproscan
IPR035901
all species →
Homologous_superfamilyGIY-YIG endonuclease superfamilyInterproscan
IPR047296
all species →
DomainUvrC/Cho-like, GIY-YIG domainInterproscan
IPR004791
all species →
FamilyUvrABC system, subunit CInterproscan
IPR038476
all species →
Homologous_superfamilyUvrC, RNAse H endonuclease domain superfamilyInterproscan
IPR002641
all species →
DomainPatatin-like phospholipase domainInterproscan
IPR043864
all species →
DomainOMP85-like, membrane spanning beta barrel domainInterproscan
IPR001162
all species →
DomainUvrC, RNAse H endonuclease domainInterproscan
IPR016035
all species →
Homologous_superfamilyAcyl transferase/acyl hydrolase/lysophospholipaseInterproscan
IPR036876
all species →
Homologous_superfamilyUVR domain superfamilyInterproscan
IPR010994
all species →
Homologous_superfamilyRuvA domain 2-likeInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR30562
all species →
UVRC/OXIDOREDUCTASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0006974
all species →
Biological ProcessDNA damage responseInterproscan
GO:0009380
all species →
Cellular Componentexcinuclease repair complexInterproscan
GO:0006289
all species →
Biological Processnucleotide-excision repairInterproscan
GO:0009381
all species →
Molecular Functionexcinuclease ABC activityInterproscan
GO:0006629
all species →
Biological Processlipid metabolic processInterproscan

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 ANN25645-RA.

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 Montipora grisea 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 Montipora grisea, 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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