Gene detail

Detailed information of ANN29383-RA in Montipora grisea

Genomic Location: Scaffold_5139__1_contigs__length_30201:16350...18260
NR annotation: GEW75136.1, heat shock 70 kDa protein, mitochondrial [Tanacetum cinerariifolium]
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
Q88DU6	Carbamoyl phosphate synthase large chain OS=Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440) OX=160488 GN=carB PE=3 SV=2
P58942	Carbamoyl phosphate synthase large chain OS=Xanthomonas axonopodis pv. citri (strain 306) OX=190486 GN=carB PE=3 SV=1
P58943	Carbamoyl phosphate synthase large chain OS=Xanthomonas campestris pv. campestris (strain ATCC 33913 / DSM 3586 / NCPPB 528 / LMG 568 / P 25) OX=190485 GN=carB PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0013113 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01728 all species →	FtsJ	FtsJ-like methyltransferase	Family	Interproscan
PF02786 all species →	CPSase_L_D2	Carbamoyl-phosphate synthase L chain, ATP binding domain	Domain	Interproscan
PF02142 all species →	MGS	MGS-like domain	Domain	Interproscan
PF03449 all species →	GreA_GreB_N	Transcription elongation factor, N-terminal	Domain	Interproscan
PF01272 all species →	GreA_GreB	Transcription elongation factor, GreA/GreB, C-term	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005483 all species →	Domain	Carbamoyl-phosphate synthase large subunit, CPSase domain	Interproscan
IPR002877 all species →	Domain	Ribosomal RNA methyltransferase, FtsJ domain	Interproscan
IPR036805 all species →	Homologous_superfamily	Transcription elongation factor, GreA/GreB, N-terminal domain superfamily	Interproscan
IPR050082 all species →	Family	Ribosomal RNA large subunit methyltransferase RlmE	Interproscan
IPR005479 all species →	Domain	Carbamoyl-phosphate synthetase large subunit-like, ATP-binding domain	Interproscan
IPR028624 all species →	Family	Transcription elongation factor GreA/GreB	Interproscan
IPR018151 all species →	Conserved_site	Transcription elongation factor, GreA/GreB, conserved site	Interproscan
IPR036914 all species →	Homologous_superfamily	Methylglyoxal synthase-like domain superfamily	Interproscan
IPR011607 all species →	Domain	Methylglyoxal synthase-like domain	Interproscan
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan
IPR006359 all species →	Family	Transcription elongation factor GreA	Interproscan
IPR011761 all species →	Domain	ATP-grasp fold	Interproscan
IPR033937 all species →	Domain	Carbamoyl-phosphate synthase large chain, methylglyoxal synthase-like domain	Interproscan
IPR015507 all species →	Family	Ribosomal RNA large subunit methyltransferase E	Interproscan
IPR022691 all species →	Domain	Transcription elongation factor, GreA/GreB, N-terminal	Interproscan
IPR036953 all species →	Homologous_superfamily	Transcription elongation factor GreA/GreB, C-terminal domain superfamily	Interproscan
IPR001437 all species →	Domain	Transcription elongation factor, GreA/GreB, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10920 all species →	RIBOSOMAL RNA METHYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006807 all species →	Biological Process	obsolete nitrogen compound metabolic process	Interproscan
GO:0008168 all species →	Molecular Function	methyltransferase activity	Interproscan
GO:0032259 all species →	Biological Process	methylation	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0032784 all species →	Biological Process	regulation of DNA-templated transcription elongation	Interproscan
GO:0001510 all species →	Biological Process	RNA methylation	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0008173 all species →	Molecular Function	RNA methyltransferase activity	Interproscan
GO:0008650 all species →	Molecular Function	rRNA (uridine-2'-O-)-methyltransferase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0070063 all species →	Molecular Function	RNA polymerase binding	Interproscan
GO:0046872 all species →	Molecular Function	metal ion binding	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

No KEGG orthology assignment for ANN29383-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.

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 →