Gene detail

Detailed information of ENSOJPP00000011848.1 in Anthopleura xanthogrammica

Genomic Location: chr2:2873752...2894589
NR annotation: XP_031561431.1, RNA cytosine-C(5)-methyltransferase NSUN2-like [Actinia tenebrosa]
Species Anthopleura xanthogrammica · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSOJPT00000013643

ATGGGAAAACGTAAACGTCAAAAGTTCAAAGGTGGGAGAGACCGAAAAGTTTGGCATGAGATAACAAAAGAGAACAAGATGTTTGAAAAATACTACAAGGCACAGAATATTATCCCAGAAGAAGAATGGGATGATTTTATAGCTGCATTTAAAAGAGAATTGCCCAGTACCATTAGAATAACAGGAACTAGGAGTCAGTCTAAGTTACTACTACAGTTTTTGAAGAAACATTACCTGGATAATTTATCAGATACACTTATAGAAGGTGAAAAAGTTGATCCACCTAAAACTTTACCATGgTATCCAGACGAACTTGCTTGGCAATTAAATCTGTCTCGAAAATTTTTAAGAAAGTCGGCAACCATGGAGAAGTTTCACTACTTTCTTGTTCAGGAGACTGAATGTGGTAATATCAGTCGGCAAGAAGCTGTCAGTATGATACCACCTCTGCTCTTAGATGTTCAACCTGGACATAAGGTTCTGGATACATGTGCTGCACCTGGCTCTAAAACAAGCCAGATTATTGAGATGCTACACACAGATGATTCTAATAGCATCCCAGATGGTCTGGTCATTGCAAACGAGCTGCAGAACAAACGCTGTTACATGTTGATACATCAAAGCAAGAGACTGAGAAGTCCATCATGTCTAGTAACAAACCATGATGCTTCAGTTTTCCCTACactttttgtcaaaaatGCAGAAGGTAATAAAGTTGAACTAAAATTTGACAGAATATTATGTGATGTTCCCTGCAGtGGTGATGGAACACTGAGGAAGAATACACTCATCTGGAACAAATGGACCCCTCAGACAGGACTCAGTTTGCACAGAATCCAGCTGAGAATCTTAGCAAGAGCAGTAGAAATGCTTGATGTTGGTGGTCGTATTGTTTATTCAACATGTTCACTGAATCCAGTAGAAAATGAAGCAGTTATTGCACAGTTACTCAAGAATAGTGATGGTGCTGTAGAACTCCTTGATGTTTCTAAAGAGCTGCCAGATCTCAAAAGATCTCCTGGACTCTACACCTGGAAGTTAATGATGAAGAATGGAGAAGAGGTTACCAGTTGTGAGCCAGGCAGTGGAGCCTATAAAGGCTGCTTCAGACAGTCACACTTTCCTCCATCAGATGAAGAGGCTAAAGCGATGAACCTTGAAAGATGTATCAGAGTTTACCCTCATCAGCAAGATACTGGGGGTTTCTTCATTGCTGTcctgatgaagaagaagaatgctccatgggaaaatgaaaacagatacAATAACTACCCAAAATGGTTGCCATGGCAAACAGAAGGAGAGGGTCAGGCTAAAAATAAACAGGGTGGTAGTGAGCCAGATGGCGGCGAAGGAGAATCAGAAGTGAAACTAGAGAGCAAagatgctgttgatgatgacaacaataTTGTAGGTGACTTACCAGAAGATGCCGATGATGTACAAGGATTAGaaaatgatgaggatgatgctgatgacaaTACCGCTAATGAGCAAGGTGCAGATAATGCTGGTGCTGTACCAGAAAACCAAGGCTTGGACactgatgaaaaagaaaaagccaTAAGTTTAAAGCCTCCAAGAAAGAAACAGAAGACAAATCCTGGTTTCAAAGAAGATCCTTTCATCTTATTGGACGACAACGATGAACATTGGCAGGCAATAAGggAGTATTTTGGAATAGAACCATCATTTCCTTCAGATCAGTTGCTGGTTCGTTCCGTCGGAGGAAAGAAGAGGAACATTTACGTTGTATCGAAACTGGTCAAGCAGGTTCTAGAATGTGCTGATGATAATCTGAAGATAATAAATGTTGGTGTGAAGTCATTCGGTCGTTGTGACAGTGATGAACATGGCTGTGACTTCAGGATCATGCAAGAGGGTATTGATGGTGTTTTCTCATATGTGACAAAGAGAAAGATATTCCTCACTGAGCAGGATGTTCTTATCCTCCTTGAACATGACAAACCCTTCACTAATAAGTTTTCAGAGTCCACAAGAAGTCAACTAACAAAAGTTTTAGGTTTGGGTTGTGTGTTATTTATCTATGATCCTAAAGGGGAATACAGttccCCTTCTGATACTCTAAATTGTGGGTTTCATTTCTGTGGATGGAAAGCAAGGACATCGACAAGAATGTTAGCAAGTAGAATGGATAAGACTCATTATAAAGTACTCTGTGGAATCCCACCAGAAAAAGATTCCTCCAAAGACCCTAAGAGCATTAAATTCTTGACAGACAAGGATGAAGACAAGGATACTAATGATGATATTGGGTTTGTTTGA

Transcript

ENSOJPT00000013643

GGTACTGCGGGCTCATTGCACGTGTTACCAaaatttttgtgttttttgtcAGAATTTTTGCTCTTTTAGGCAGAAATTCTCTGTTATTTTACTAAAATAATACACTTTAGAGCCTCTAGGAAGTGATTTTATTCGTTAAATATGGGAAAACGTAAACGTCAAAAGTTCAAAGGTGGGAGAGACCGAAAAGTTTGGCATGAGATAACAAAAGAGAACAAGATGTTTGAAAAATACTACAAGGCACAGAATATTATCCCAGAAGAAGAATGGGATGATTTTATAGCTGCATTTAAAAGAGAATTGCCCAGTACCATTAGAATAACAGGAACTAGGAGTCAGTCTAAGTTACTACTACAGTTTTTGAAGAAACATTACCTGGATAATTTATCAGATACACTTATAGAAGGTGAAAAAGTTGATCCACCTAAAACTTTACCATGgTATCCAGACGAACTTGCTTGGCAATTAAATCTGTCTCGAAAATTTTTAAGAAAGTCGGCAACCATGGAGAAGTTTCACTACTTTCTTGTTCAGGAGACTGAATGTGGTAATATCAGTCGGCAAGAAGCTGTCAGTATGATACCACCTCTGCTCTTAGATGTTCAACCTGGACATAAGGTTCTGGATACATGTGCTGCACCTGGCTCTAAAACAAGCCAGATTATTGAGATGCTACACACAGATGATTCTAATAGCATCCCAGATGGTCTGGTCATTGCAAACGAGCTGCAGAACAAACGCTGTTACATGTTGATACATCAAAGCAAGAGACTGAGAAGTCCATCATGTCTAGTAACAAACCATGATGCTTCAGTTTTCCCTACactttttgtcaaaaatGCAGAAGGTAATAAAGTTGAACTAAAATTTGACAGAATATTATGTGATGTTCCCTGCAGtGGTGATGGAACACTGAGGAAGAATACACTCATCTGGAACAAATGGACCCCTCAGACAGGACTCAGTTTGCACAGAATCCAGCTGAGAATCTTAGCAAGAGCAGTAGAAATGCTTGATGTTGGTGGTCGTATTGTTTATTCAACATGTTCACTGAATCCAGTAGAAAATGAAGCAGTTATTGCACAGTTACTCAAGAATAGTGATGGTGCTGTAGAACTCCTTGATGTTTCTAAAGAGCTGCCAGATCTCAAAAGATCTCCTGGACTCTACACCTGGAAGTTAATGATGAAGAATGGAGAAGAGGTTACCAGTTGTGAGCCAGGCAGTGGAGCCTATAAAGGCTGCTTCAGACAGTCACACTTTCCTCCATCAGATGAAGAGGCTAAAGCGATGAACCTTGAAAGATGTATCAGAGTTTACCCTCATCAGCAAGATACTGGGGGTTTCTTCATTGCTGTcctgatgaagaagaagaatgctccatgggaaaatgaaaacagatacAATAACTACCCAAAATGGTTGCCATGGCAAACAGAAGGAGAGGGTCAGGCTAAAAATAAACAGGGTGGTAGTGAGCCAGATGGCGGCGAAGGAGAATCAGAAGTGAAACTAGAGAGCAAagatgctgttgatgatgacaacaataTTGTAGGTGACTTACCAGAAGATGCCGATGATGTACAAGGATTAGaaaatgatgaggatgatgctgatgacaaTACCGCTAATGAGCAAGGTGCAGATAATGCTGGTGCTGTACCAGAAAACCAAGGCTTGGACactgatgaaaaagaaaaagccaTAAGTTTAAAGCCTCCAAGAAAGAAACAGAAGACAAATCCTGGTTTCAAAGAAGATCCTTTCATCTTATTGGACGACAACGATGAACATTGGCAGGCAATAAGggAGTATTTTGGAATAGAACCATCATTTCCTTCAGATCAGTTGCTGGTTCGTTCCGTCGGAGGAAAGAAGAGGAACATTTACGTTGTATCGAAACTGGTCAAGCAGGTTCTAGAATGTGCTGATGATAATCTGAAGATAATAAATGTTGGTGTGAAGTCATTCGGTCGTTGTGACAGTGATGAACATGGCTGTGACTTCAGGATCATGCAAGAGGGTATTGATGGTGTTTTCTCATATGTGACAAAGAGAAAGATATTCCTCACTGAGCAGGATGTTCTTATCCTCCTTGAACATGACAAACCCTTCACTAATAAGTTTTCAGAGTCCACAAGAAGTCAACTAACAAAAGTTTTAGGTTTGGGTTGTGTGTTATTTATCTATGATCCTAAAGGGGAATACAGttccCCTTCTGATACTCTAAATTGTGGGTTTCATTTCTGTGGATGGAAAGCAAGGACATCGACAAGAATGTTAGCAAGTAGAATGGATAAGACTCATTATAAAGTACTCTGTGGAATCCCACCAGAAAAAGATTCCTCCAAAGACCCTAAGAGCATTAAATTCTTGACAGACAAGGATGAAGACAAGGATACTAATGATGATATTGGGTTTGTTTGAACTCATCTCCTCTGATTCCTCCCTTCCATCATCGCTCTGAGGGTagtatacatatacatatacagtcCAATATAGAAGATCtagagggccacaagtttattgtGCAACCcttgttaaataaataaagtctTTGGTGATCTAGAGGTGCCCATctctcaaaataaataaataaaatcaacatTGTTTATAGAGGATAACACTTGACCgtaattcaactgataaaACTCGCAGTCCTCTTTTAACAACTCTTGTTGATTATGCACGGGTTCGTCAGGCCATTAACggggtcatccgagccacgtgaaggtctaaccatttgtaaatgtaatgaaaaagaaagcacCTTaacctcagttattttaagacccatGATCTCctgtgctcaaccaactggttggcttttttttcttttcatcttaTCATGCCCAACCAAACATTTTCAATACAGAGAGGGATTACTacaagggcagatccaggaatttttttttatagggGGGTCCAAACATTGAGAGGGGGAGTCCAAATACTTCcaacaaaatttacttcaaacctgtggcaaaactaaattttag

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5ZLV4	RNA cytosine-C(5)-methyltransferase NSUN2 OS=Gallus gallus OX=9031 GN=NSUN2 PE=2 SV=1
Q28E61	RNA cytosine-C(5)-methyltransferase NSUN2 OS=Xenopus tropicalis OX=8364 GN=nsun2 PE=2 SV=1
Q08J23	RNA cytosine C(5)-methyltransferase NSUN2 OS=Homo sapiens OX=9606 GN=NSUN2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003654 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01189 all species →	Methyltr_RsmB-F	16S rRNA methyltransferase RsmB/F	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan
IPR049560 all species →	Domain	SAM-dependent methyltransferase RsmB-F/NOP2-type, catalytic core	Interproscan
IPR023267 all species →	Family	RNA (C5-cytosine) methyltransferase	Interproscan
IPR023270 all species →	Family	tRNA (C5-cytosine) methyltransferase, NCL1	Interproscan
IPR018314 all species →	Conserved_site	Bacterial Fmu (Sun)/eukaryotic nucleolar NOL1/Nop2p, conserved site	Interproscan
IPR001678 all species →	Domain	SAM-dependent methyltransferase RsmB-F/NOP2-type domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22808 all species →	NCL1 YEAST -RELATED NOL1/NOP2/FMU SUN DOMAIN-CONTAINING	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001510 all species →	Biological Process	RNA methylation	Interproscan
GO:0008173 all species →	Molecular Function	RNA methyltransferase activity	Interproscan
GO:0000049 all species →	Molecular Function	tRNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0008168 all species →	Molecular Function	methyltransferase activity	Interproscan
GO:0016428 all species →	Molecular Function	tRNA (cytidine-5-)-methyltransferase activity	Interproscan
GO:0030488 all species →	Biological Process	tRNA methylation	Interproscan
GO:0003723 all species →	Molecular Function	RNA 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K15335	NSUN2, TRM4; tRNA (cytosine34-C5)-methyltransferase	EC:2.1.1.203	Transfer RNA biogenesis	ko03016	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 Anthopleura xanthogrammica 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 Anthopleura xanthogrammica, 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 →