Gene detail

Detailed information of XP_065059466.1 in Rhopilema esculentum

Genomic Location: ScUbCFx_217:4287507...4315707
NR annotation: no NCBI-NR hit recorded
Species Rhopilema esculentum · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC135686978

ATGTCGTTTCTAAGTAAAAGATTGGTGATTGGTGCGAGAAAGTCACTTCATAAATTCCCACATAGCCAATTTCATGGAGCACAGAAGCTTTGCACAGCCCCTGCAGTCCCCAAAACCATTGCTGACATTGGCTTGATTCAAAAGAGGATGATGCAACATCGATACAATCAGCTTACAACTGCAGTAATCAGATCGTGTTCAACCCAATTTGGAATTAGTGGAAGACCTGTCCCAACTGAATGTTATCCAAGACAAGGCAGGGATGGCAAACAAGGAAGTAGCAAAAGTGGACCAAATGAGAATAATCAAAGCAGTAATGGAGACAGAGGCGACAATGGAGGCAAGAAGGATCCGGAGGTTATAATTGATGGATCTTCAAATGACAATCCAAATATCAGCAATACAGCACTAGCCCAAATAGGAGTTCCGGATAACTTTCCTGAGGTTCCAATCCTACCAGTGCTGCGGAATCCAATCTTCCCCAAATTTGTGAAACTAATCGAGGTTTCAGACAAGTCACTTATAGATCTAATAAGAAGAAAATGTAAGCTAATGCAGCCCTATGCTGGTGCTTTCCTCAGAAAAGATGACAAGGAAACTGAAACAATTGAAAGTCTTGATGAGATATACAATACTGGGACTTTTGTGCAAGTTCAAGAGCTGCATGACACAGGGGATAAGTTGAGAATGATTATTGCAGGCCACAGAAGAATAAAGATAACAGAGGCGATCGAAGAGGGCGGAATCTCTGCCCTTGTAACTGATGAGACAGATGATGGCCAAAAGTCAGCAACGCTTGGAGAAGACGCGAATAAAGAGGAATTTCTAGAAGAAAAGGAAGAGCATCTGAGTACTGCTGAAGTCATTCAGGAGGACGTTGATGAAATTGTCAATGAAGGAGGGAAGAAGCCTATCTTAATGGCTAAAATTGAAAATGTTTATCATGAACCGTTTCAGATGACCCAGGAAGTGAAGGCTACTGCTGCTGAAGTCATCAAGACAATAAGAGATATCATTGCCCTAAATCCGTTGTATAAAGAGTCGCTGGCTCAACTAATTGAGGCAGGAAAAAGGGTTGTTGACAACCCAACGCATTTAGCAGATTTTGGTGCCGCCCTTACCAGTGCTGACCCTGCGCAGCTACAGGCCGTCCTGGAGGAGACTAATATACCAAACAGACTGATGCTTACTTTAGAGCTACTGAAGAAGGAACTTGCAATATGCATGCTTCAACAAAAACTTGGCAAAGAGGTTGAAGAAAAGGTTAACAAAATGCAAAGAAAGTATCTTCTACAAGAACAATTGAAAATAATTAAGAAGGAATTGGGTTTAGAAAAGGACGACAAGGACACTGTTATTGAAAAGTTCAAAGAAAGGCTGAAGGAGAAAGATGTTCCAAAGTCTGTGCAAGATGTCATTGACGAAGAAATGAACAAAATCCAGTTTCTTGACAATCATTCATCAGAATTCAGTGTTAGCCGAAACTATTTGGATTGGCTGACGTGCATTCCGTGGGGGACTCACAGTGAAGAGAATTTTGATATAAAAAAAGCAAAGGAAATTCTTGACGAGGATCATTATGGCCTTGAAGACATTAAAGATCGAATCCTTGAATTCATTGCTGTTGGCCAGCTTAGTGGATCCGTCCAAGGAAAGATATTGTGCTTTACTGGCCCACCAGGTGTTGGTAAAACAAGCATTGCGCGGTCCATTGCAAGAGCTCTAAACAGAGAGTATTTTAGATTCAGTGTTGGTGGCATGACGGATGTTGCAGAGATCAAGGGCCATCGACGAACGTACGTTGGTGCAATGCCAGGAAAGATTATCCAGTGCTTGAAGAAAACCAAAACACAAAACCCCTTGATTCTTATCGATGAGGTGGATAAAATCGGCCGTGGGATTCAGGGCGACCCGGCTTCTGCATTACTCGAATTGCTGGACCCAGAACAAAATGTCAACTTTTTGGATCACTACTTAGATGTTCCTATTGATCTATCAAAGGTGTTGTTCATTTGCACAGCAAATGTCATTGATACGATTCCAGGGCCGTTAAAGGATCGAATGGAAATGATCCATGTTTCTGGCTACGTAGAAGACGAAAAATTCAACATTGCGCAGAAATACTTGATTCCCGTGGCGCAAGAGCGAGCAGGCTTAAAAGATTCTGATGTCAATATAACTGATGAGGCATTGAAGACGTTGATAAGATCATACTGCAGAGAGAACGGAGTGAGGAACCTGCAAAAGCATATCGAAAAGGTTTTCAGGAAGACAGCCCTGATGCTCGTTGAACAAGGAGGTGGCGAGATCAAAATTCTCGATAACAATTTAAAGAAATTTGTTGGCAATCCAGTGTTTAATACTGAGAGAATTTATGAAGAAACACCCCCAGGAGTGTCAACTGGTCTTGCCTGGACATCAATGGGTGGATCGACTTTGTTTATAGAAACTGCTGTTAAAAAAGTTTCTAAAAAAGGTGTCGATAAAGGAAAAGGTTCCTTGGAGGTTACTGGTCAACTGGGGGATGTTATGAAAGAAAGTTCCCATATAGCTTACACATTCGCAAAAGGCTTCCTTTCTCGAACGGATGCCGAAAATGACTTCTTTGACAATGCTTCAATACACTTACATGTTCCAGAGGGAGCCACTCCGAAAGACGGTCCATCAGCCGGTTGTACAATCATAACAGCCTTGCTTTCTCTGGCTTTTGATAGACCGATAAAACAAAACCTTGCTATGACTGGTGAAGTTTCACTCACAGGAAAGGTTTTACCTGTTGGCGGGATCAAAGAGAAGTTAATAGCTGCAAAACGTGCAAATATATCAACAGTCATTTTACCAGAAGGCAACAGAAAAGATTATGAAGACTTGCAAAGTTTCATAAAACAAAACTTAGAAGTGCATTTTGTTAGTAACTACTATACGAAATAGCACTGAATTATTCGGAAAACAATGCAGAGCAAGACAACAGCTCGTAG

Transcript

rna-XM_065203394.1

ACAATAGCTTAAAGTAGCCCCCGGAAGACTGGACAGCCTCGTATACAGAGCGAGACTTCTCGTGTGCACTGTCAGGAGAAAATTCGAGAGAAAACCATTGATGAAGAACCTTGCATAACCTCATCAGGGGAGGAGTTCGTTAAAATGTCGTTTCTAAGTAAAAGATTGGTGATTGGTGCGAGAAAGTCACTTCATAAATTCCCACATAGCCAATTTCATGGAGCACAGAAGCTTTGCACAGCCCCTGCAGTCCCCAAAACCATTGCTGACATTGGCTTGATTCAAAAGAGGATGATGCAACATCGATACAATCAGCTTACAACTGCAGTAATCAGATCGTGTTCAACCCAATTTGGAATTAGTGGAAGaCCTGTCCCAACTGAATGTTATCCAAGACAAGGCAGGGATGGCAAACAAGGAAGTAGCAAAAGTGGACCAAATGAGAATAATCAAAGCAGTAATGGAGACAGAGGCGACAATGGAGGCAAGAAGGATCCGGAGGTTATAATTGATGGATCTTCAAATGACAATCCAAATATCAGCAATACAGCACTAGCCCAAATAGGAGTTCCGGATAACTTTCCTGAGGTTCCAATCCTACCAGTGCTGCGGAATCCAATCTTCCCCAAATTTGTGAAACTAATCGAGGTTTCAGACAAGTCACTTATAGATCtaataagaagaaaatgtaagCTAATGCAGCCCTATGCTGGTGCTTTCCTCAGAAAAGATGACAAGGAAActgaaacaattgaaagtcTTGATGAGATATACAATACTGGGACTTTTGTGCAAGTTCAAGAGCTGCATGACACAGGGGATAAGTTGAGAATGATTATTGCAGGCCACAGAAGaaTAAAGATAACAGAGGCGATCGAAGAGGGCGGAATCTCTGCCCTTGTAACTGATGAGACAGATGATGGCCAAAAGTCAGCAACGCTTGGAGAAGACGCGAATAAAGAGGAATTTctagaagaaaaggaagagcATCTGAGTACTGCTGAAGTCATTCAGGAGGACGTTGATGAAATTGTCAATGAAGGAGGGAAGAAGCCTATCTTAATggctaaaattgaaaatgtttatcatGAACCGTTTCAGATGACCCAGGAAGTGAAGGCTACTGCTGCTGAAGTCATCAAGACAATAAGAGATATCATTGCCCTAAATCCGTTGTATAAAGAGTCGCTGGCTCAACTAATTGAGGCAGGAAAAAGGGTTGTTGACAACCCAACGCATTTAGCAGATTTTGgtGCCGCCCTTACCAGTGCTGACCCTGCGCAGCTACAGGCCGTCCTGGAGGAGACTAATATACCAAACAGACTGATGCTTACTTTAGAGCTACTGAAGAAGGAACTTGCAATATGCATGCTTCAACAAAAACTTGGCAAAGAGGTTGAAGAAAAGGTtaacaaaatgcaaagaaagtaTCTTCTAcaagaacaattgaaaataattaagaagGAATTGGGTTTAGAAAAGGACGACAAGGACACTGTTAttgaaaagttcaaagaaaGGCTGAAGGAGAAAGATGTTCCAAAGTCTGTGCAAGATGTCATTGACGAAGAAATGAACAAAATCCAGTTTCTTGACAATCATTCATCAGAATTCAGTGTTAGCCGAAACTATTTGGATTGGCTGACGTGCATTCCGTGGGGGACTCACAGTGAAGagaattttgatataaaaaaagcaaaggaaattCTTGACGAGGATCATTATGGCCTTGAAGACATTAAAGATCGAATCCTTGAATTCATTGCTGTTGGCCAGCTTAGTGGATCCGTCCAAGGAAAGATATTGTGCTTTACTGGCCCACCAGGTGTTGGTAAAACAAGCATTGCGCGGTCCATTGCAAGAGCTCTAAACAGAGAGTATTTTAGATTCAGTGTTGGTGGCATGACGGATGTTGCAGAGATCAAGGGCCATCGACGAACGTACGTTGGTGCAATGCCAGGAAAGATTATCCAGTGCTTGAAGAAAACCAAAACACAAAACCCCTTGATTCTTATCGATGAGGTGGATAAAATCGGCCGTGGGATTCAGGGCGACCCGGCTTCTGCATTACTCGAATTGCTGGACCCAGAACAAAATGTCAACTTTTTGGATCACTACTTAGATGTTCCTATTGATCTATCAAAGGTGTTGTTCATTTGCACAGCAAATGTCATTGATACGATTCCAGGGCCGTTAAAGGATCGAATGGAAATGATCCATGTTTCTGGCTACGTAGAAGacgaaaaattcaacattgcGCAGaaatactTGATTCCCGTGGCGCAAGAGCGAGCAGGCTTAAAAGATTCTGATGTCAATATAACTGATGAGGCATTGAAGACGTTGATAAGATCATACTGCAGAGAGAACGGAGTGAGGAACCTGCAAAAGCATATCGAAAAGGTTTTCAGGAAGACAGCCCTGATGCTCGTTGAACAAGGAGGTGGCGAGATCAAAATTCTCGataacaatttaaagaaatttgttggCAATCCAGTGTTTAATACTGAGAGAATTTATGAAGAAACACCCCCAGGAGTGTCAACTGGTCTTGCCTGGACATCAATGGGTGGATCGACTTTGTTTATAGAAACTGctgttaaaaaagtttctaaaaaaggtGTCGATAAAGGAAAAGGTTCCTTGGAGGTTACTGGTCAACTGGGGGATGTTATGAAAGAAAGTTCCCATATAGCTTACACATTCGCAAAAGGCTTCCTTTCTCGAACGGATGCCGAAAATGACTTCTTTGACAATGCTTCAATACACTTACATGTTCCAGAGGGAGCCACTCCGAAAGACGGTCCATCAGCCGGTTGTACAATCATAACAGCCTTGCTTTCTCTGGCTTTTGATAGACCGATAAAACAAAACCTTGCTATGACTGGTGAAGTTTCACTCACAGGAAAGGTTTTACCTGTTGGCGGGATCAAAGAGAAGTTAATAGCTgcAAAACGTGCAAATATATCAACAGTCATTTTACCAGAAGGCAACAGAAAAGATTATGAAGACttgcaaagtttcataaaacaaaacttagaAGTGCATTTTGTTAGTAACTACTATACGAAATAGCACTGAATTATTCGGAAAACAATGCAGAGCAAGACAACAGCTCGTagaattatatatattattattagcTATTTACTTCCCATTTAATTCTATAAAACATTAAAGTTGGGTATTTTACAATCTTTAATCTAAATCTCAAAACCTGCCTATAACCTTCACCGAGTATACTTAGTATCAGCTTTAGATAATACCCGTGGAGAAGTATGTaattaatcaagaaaataagatttgtAGGCAAAATAAACGGAAAAGAAGCCCAGTGTTTCTAATTTATCGATAAGCCGAACattatattttccaaattttttttagatccGCGAAaccagttttattttcaaggaagtgaaagaaatttgtttgattcttagttatttttctttcctttttccaaTGCCAAAAATCCCAATTTTCGAAGTAAATTCTCCAAATAACAAGATGAATGCCCCTTCCAATACCCCGCGATAACGTTTCCATCGTTCAATGGGCTATTCTTCCCTTTATTCTTTCACTAGATCATTTTGCTTAAAGGGAAACAGTGGATTGGGCTGGGGGTGCtacataaaaaaacaaactacaaTGATTAGACAAGTGTGGCTTATACACAGGTTTTCGTTGTTTTGGTAGTGTTTTACAAGAATCACATCTGCCAATTAGCTGTTTGAAAACTGAGTAAATAGCTGATTTATATTGGTATAAATGAAGATATTCTCGAGAGTTTATTACTGGTTGTTGCTCCTCAGTCAAAACAACGTCCAAGGAAATTTGTATCGTTAATTACTCTGTGTTTCAGTTAATTCTATTTGTCCACTCCAATACTTCAGTCAAGTCCTTTGATTGTCCAAATAATACCGAactattgtttttgttgtcttttgGCTTGAGGAGGGTCGTATTATCAACTTGGGATGAAATACAGAGTTGACAACTGCTTCAATTCTTTCTCAAACCAATAGGCCGATTTTTTGCAACCTTTCtacaaaagtaaaagaaagGGCCTTGTATGGAAGTAGTTAGCATAATAACTTTGCTATAAATGATGTCCCGCAGGTAGACTTGTTATCCATTAAGTAGATGGTATACAGTTAATCCGTGCTTTataaatgcataaatttcaTCTGTATTGGCGAATgcataaagaaagaaaaga

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001331 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00004 all species →	AAA	ATPase family associated with various cellular activities (AAA)	Domain	Interproscan
PF05362 all species →	Lon_C	Lon protease (S16) C-terminal proteolytic domain	Domain	Interproscan
PF02190 all species →	LON_substr_bdg	ATP-dependent protease La (LON) substrate-binding domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015947 all species →	Homologous_superfamily	PUA-like superfamily	Interproscan
IPR004815 all species →	Family	Lon protease, bacterial/eukaryotic-type	Interproscan
IPR003111 all species →	Domain	Lon protease, N-terminal domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR027065 all species →	Family	Lon protease	Interproscan
IPR003959 all species →	Domain	ATPase, AAA-type, core	Interproscan
IPR008269 all species →	Domain	Peptidase S16, Lon proteolytic domain	Interproscan
IPR046336 all species →	Homologous_superfamily	Lon protease, N-terminal domain superfamily	Interproscan
IPR020568 all species →	Homologous_superfamily	Ribosomal protein uS5 domain 2-type superfamily	Interproscan
IPR008268 all species →	Active_site	Peptidase S16, active site	Interproscan
IPR014721 all species →	Homologous_superfamily	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Interproscan
IPR003593 all species →	Domain	AAA+ ATPase domain	Interproscan
IPR027503 all species →	Family	Lon protease homologue, chloroplastic/mitochondrial	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43718 all species →	LON PROTEASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004176 all species →	Molecular Function	ATP-dependent peptidase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0003697 all species →	Molecular Function	single-stranded DNA binding	Interproscan
GO:0004252 all species →	Molecular Function	serine-type endopeptidase activity	Interproscan
GO:0005759 all species →	Cellular Component	mitochondrial matrix	Interproscan
GO:0006515 all species →	Biological Process	protein quality control for misfolded or incompletely synthesized proteins	Interproscan
GO:0007005 all species →	Biological Process	mitochondrion organization	Interproscan
GO:0030163 all species →	Biological Process	protein catabolic process	Interproscan
GO:0051131 all species →	Biological Process	chaperone-mediated protein complex assembly	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis 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

No KEGG orthology assignment for XP_065059466.1.

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 Rhopilema esculentum 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 Rhopilema esculentum, 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 →