Gene detail

Detailed information of ENSSYXP00000046458.1 in Micromussa lordhowensis

Genomic Location: chr2:10622611...10627059
NR annotation: XP_020602685.1, rRNA methyltransferase 3, mitochondrial-like [Orbicella faveolata]
Species Micromussa lordhowensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

ENSSYXT00000048915

CGACAGTGACAAGCACATGTACGGAAAAAGAGGTCACAACCACATTTTCTCATTTTAGAACTTTAAATAGTTTAATTCAACGATCCAGATGCGTGCATTAATTCAAAGGTTTGCTTTGGTGAGACAAGCCCGAAAAGTGGCGCGATTTTCGCCAGAGGCATTTAAAGCTGATCAAACGCAAGTCCGCAATATTTACAGAGGGTCGGACAGGGGGGGAATTGAAAGTGGCACACCACGACTCAGAATGGTAGCATCCcttaacaaaaggaaacacagAGATAAACATAACCGCATCATCCTAGAGGGATGGCGTCTTGTAAAGGAAGCTTTGATGGCCAAAGTTAGAGTATTAAGTATATTCTACACTGATCCAGGACTACTGGATCATATTGACACTTTCAATTTGCCAAATAACTGTCTTgctcaagtaagccaagaaACAATGGAAACTTTATCAAATGCAGTCACACCCCCTGGTATTGTTGGAATGTTTAAGCGTCCAAGACAAGGAGAAGGAGGAGAATTAAGGAGCAACAGTGAACTTGAAAATCCTCTGACAGTGTTATGTGATGGCCTGAAAGATCCAACAAACTTAGGTACATTAGTGCGGATATGTGCTGCAGCAGGCTGCCAGTCATTTATAACCTTGACTGGCTGTGTTGACCTGTGGGATCCAAAAGTATTACGATGTGCTGCTGGTGGACACTTCTATGTTCCAGTTCATTACAACTTGGACTGGGAAGATATTGAGACACTTATAAAAGACAAAAGGATTTTTCTTGCGGACAACAATGTCCCTGATGAGCTCAACATTCCAGCATCAGAATATTTTCATGTAGACTGGACTCAAGGACCCAGTGTTCTTATCATCGGTAATGAGGCCACAGGCCTGGGAGAAAATGCAAAGAACTTGGCATGCCAAAATGGTGGACAACTAGTTCATGTGCCAATGGCGAACACAATTGACAGTTTGAGTGCAGCAATGGCTGGCACAGTAATTATTTACGAAGCATACAGACAATGTATTACAGCAAAACCAGTCAGAGACAAGACAAGAACATAaaggaataaaatatttaaattttattgGCTGGCAAAGTGGCCATCAGGAGTGACCTTGATTCTGGGGATGTAATGACTTTTGTGTCATGTTGATTTCTCCCTACAAAGAACAGCCAATGCAGCTCCTGTTGATGCATCTACATTTTCACGAAGCACCAGTGGCAATCCAAAAACCTGCTCAACTTGTTTTTGGAGAACCTGATTTCTTATCAGAGCACTTCCAGTGCCTACAATTCTTTGCACGTCATGCGATTGTAGGAATTCCCTTGACATCATCTTCTGCACATTTTCGACAAGACCACGAGAAAGAGCCACTCCAATGTCACCAAGTGAGACATTTTCTGGGGTAATATTAGTCACCTGTCCCTTTTCATCTGGAACGTGCCTTTCTCCCCAGAAAGTAGGAACCACTTTCAGTGATGTTGAACCCTTTTTCTCGGTGTAGTATAGAATTCTTTGATAAATTTCATCTGTAGATGGAAGGCTGTCATCATTCACACCAAGATCCTTCATCCAAGATGTTAACATCTTTACATAGACAGCAAAAACATTACCACCTGTTAAGATGATTATCACTTGTTAGTAATTACTTTTACCATTGGCATGTTAAGATTTGCTAAGCCTGTGAACACAGATGGATTAAAACCGGGAAAGTCATCTGTATTCGCAGGCTAGATTTTATTATAATGACAAATTTTTACATTGAAAACTTAAATGCTTTGATGGTTTTTTTTTGACGCCAATAAAAGGGCCAACGATAACTTTATGAGTCATGCAGTCTTAAAGACAACAGTGTGGTAAACTGACAGTCACCCTCCTTCTATTGCTTCTTACTACTATAGAGACACAAGAACAGCCAGTACTTGAATGTACTGATGCACAACAGTAACTAAATCTTGGTGTCACATCCACAATTTTGgagctttaaggtggctcaaaacagtttccagtactttccaagacttagagtttgatgggtcattataaccactctatatca

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9HC36	rRNA methyltransferase 3, mitochondrial OS=Homo sapiens OX=9606 GN=MRM3 PE=1 SV=2
Q5ND52	rRNA methyltransferase 3, mitochondrial OS=Mus musculus OX=10090 GN=Mrm3 PE=2 SV=1
Q566V3	rRNA methyltransferase 3A, mitochondrial OS=Danio rerio OX=7955 GN=mrm3a PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010035 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00588 all species →	SpoU_methylase	SpoU rRNA Methylase family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029064 all species →	Homologous_superfamily	Ribosomal protein eL30-like superfamily	Interproscan
IPR001537 all species →	Domain	tRNA/rRNA methyltransferase, SpoU type	Interproscan
IPR051259 all species →	Family	Ribosomal RNA Methyltransferase	Interproscan
IPR029026 all species →	Homologous_superfamily	tRNA (guanine-N1-)-methyltransferase, N-terminal	Interproscan
IPR013123 all species →	Domain	RNA 2-O ribose methyltransferase, substrate binding	Interproscan
IPR029028 all species →	Homologous_superfamily	Alpha/beta knot methyltransferases	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43191 all species →	RRNA METHYLTRANSFERASE 3,	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0008173 all species →	Molecular Function	RNA methyltransferase activity	Interproscan
GO:0008168 all species →	Molecular Function	methyltransferase 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
K20095	RNMTL1; 16S rRNA (guanosine(1370)-2'-O)-methyltransferase	EC:2.1.1.-	Ribosome biogenesis	ko03009	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 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.

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 →