Gene detail

Detailed information of ANN23173-RA in Montipora grisea

Genomic Location: Scaffold_26__1_contigs__length_2154940:2134847...2136817
NR annotation: MCE2402993.1, ATP-dependent Clp protease ATP-binding subunit ClpX [Candidatus Poribacteria bacterium]
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 accession	Description
C4ZGF5	ATP-dependent Clp protease ATP-binding subunit ClpX OS=Agathobacter rectalis (strain ATCC 33656 / DSM 3377 / JCM 17463 / KCTC 5835 / VPI 0990) OX=515619 GN=clpX PE=3 SV=1
B0K532	ATP-dependent Clp protease ATP-binding subunit ClpX OS=Thermoanaerobacter sp. (strain X514) OX=399726 GN=clpX PE=3 SV=1
B0KBA3	ATP-dependent Clp protease ATP-binding subunit ClpX OS=Thermoanaerobacter pseudethanolicus (strain ATCC 33223 / 39E) OX=340099 GN=clpX PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004272 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00574 all species →	CLP_protease	Clp protease	Domain	Interproscan
PF07724 all species →	AAA_2	AAA domain (Cdc48 subfamily)	Domain	Interproscan
PF10431 all species →	ClpB_D2-small	C-terminal, D2-small domain, of ClpB protein	Domain	Interproscan
PF06689 all species →	zf-C4_ClpX	ClpX C4-type zinc finger	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR023562 all species →	Family	Clp protease proteolytic subunit /Translocation-enhancing protein TepA	Interproscan
IPR050052 all species →	Family	ATP-dependent Clp protease ATP-binding subunit ClpX	Interproscan
IPR004487 all species →	Family	Clp protease, ATP-binding subunit ClpX	Interproscan
IPR003959 all species →	Domain	ATPase, AAA-type, core	Interproscan
IPR019489 all species →	Domain	Clp ATPase, C-terminal	Interproscan
IPR001907 all species →	Family	ATP-dependent Clp protease proteolytic subunit	Interproscan
IPR010603 all species →	Domain	Zinc finger, ClpX C4-type	Interproscan
IPR046425 all species →	Family	Clp protease, ATP-binding subunit ClpX, bacteria	Interproscan
IPR038366 all species →	Homologous_superfamily	Zinc finger, ClpX C4-type superfamily	Interproscan
IPR029045 all species →	Homologous_superfamily	ClpP/crotonase-like domain superfamily	Interproscan
IPR003593 all species →	Domain	AAA+ ATPase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR48102 all species →	ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPX-LIKE, MITOCHONDRIAL-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0009376 all species →	Cellular Component	HslUV protease complex	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0051301 all species →	Biological Process	cell division	Interproscan
GO:0051603 all species →	Biological Process	proteolysis involved in protein catabolic process	Interproscan
GO:0006457 all species →	Biological Process	protein folding	Interproscan
GO:0051082 all species →	Molecular Function	unfolded protein binding	Interproscan
GO:0140662 all species →	Molecular Function	ATP-dependent protein folding chaperone	Interproscan
GO:0004176 all species →	Molecular Function	ATP-dependent peptidase activity	Interproscan
GO:0004252 all species →	Molecular Function	serine-type endopeptidase activity	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0046983 all species →	Molecular Function	protein dimerization activity	Interproscan

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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K03544	clpX, CLPX; ATP-dependent Clp protease ATP-binding subunit ClpX	-	Chaperones and folding catalysts	ko03110	deepkoala

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.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search 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 found	open →
Expression heatmap	Draw 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 / orthogroup	Look 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 analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →