Gene detail

Detailed information of XP_065058582.1 in Rhopilema esculentum

Genomic Location: ScUbCFx_1:11788618...11806399
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

LOC135686307

ATGGCTGCCTTGCTGCTCAAAGAGAAAATTCAAGTCGAGACGAACCACGGACCATGTGAAATTCACTTAAATTTTGGCAGTATAACAAAACTCGATAAAAAAGATAAAGTTGACGTACTGGTTGTCTCAGCATTCCCAGATGACTATATTCCCACACCAACATCTGTCATCGGTGCCTTGCAAAGTGACTTAAAGATAAGTGTAAGGAAACTATCTAAGGATAAAGAAGAGGATCATAGACGCTTATTTTCATGCTGGTGGTCTAAGCCTTTGGCAAAGAAGTACAGCTATGGCAGAATACTTTGCTTTGAGGGTAGTTTCAAGAAAAATTCAAGACCTCCGATGGTTGTAGGTGAAGTTTTCAGATGTCTAATCTCAATGTGTAAGGAGAAGGACATTAAAGTCATTATGCCACTTTTAGCTTCTGGAGATCAGGGCTACAACCAAGAAATGATGCTTCGTCTAATTGTTGAAGCAGCTGTCCATTGGATGAAAATTGGTTTACCATTAAAAGTTCTGAAAATTGTTATCTATGAAAGAAATCTAGGTGGAGTTGACAAACATCCCTTGTTGTCATACTTCAGAGATCTAAAGGTTAAATGGGGTGAGATTATGGCCAAAGAGAATGAAGAATCAAAGGTGCACCCAATTGAGTATGATGTCTATCTTTCATACAATAATGCAGACCAGCAACTGGCAAATGTAGTTACTGAAAACCTTAAAGAAACCAACAACTCCATAAGAATTTTTACCAAGCATCAGACTCTCAATCAGAATGTTTCATGGCAAGAAGAAATTTACAAGGTCATGGTGGCAAGTGCACGTGTAATAACAATACTGAGTCCAAGATTCTTAGATGATGAAGCCTGTATTGAACAATATAACATTGCTCTTTGTTGCACCAGAAATATGAAGAGAGATTACTTAGCACCCTTTTACACTGATTCAATTGATGACATGCCAACATACATGTGTCTTATACAATATGTAGACTGCAGAACTGCGGATCAAGATAAAATTTCGCAAGCTTGCAAGTCCCTCACAGATTGGCTGCAAATGCATTTGGCAGAGATAAAACATTTGGAATCAGAAACCCAAACTCTAAAAGTAGCGAAACCTTTTGTAAGAAATGAATATGATGTCTTTATCTCCTATTCCCACCAAAACTCAGACGTAGCCCATGTAATTCAGCGGTATCTGTCCCGGTTTTATCCAGAGTGGAACATATTCATTGACATAACAGAGTTGCAAACGGGCGTAGCATGGCAAGTAAAACTGTACAAAAGTATTGAGGCATCTCGTTATGTGATTACGCTGTTGGCTCCGCCTTACTTGCAGTCAAAAGTTTGTCAAGAAGAATACAACCTTGCGTCAGCATTGCACTCAGACCCGGCATACAGCACTAAATTGATTCCCATTCTAGTGGAGCCAGTTGAACGACTTCCAGTATGGTGTAGCAACTATACCCCTATTGACTGCAGAGACATGTCTGACAGAACACATGTCAGACTTATGGAGATTATCCAAAAGATCAAATTGTTTGAAGAATTTGAGCTTTTAGAAGATCACAGGATGTCATCAGTTGAGCAAATAACATCAGACTGGCGGATAGAGCATACATTACGTGGATTGCAGTTCTTTGACGGTCTAGATACTCGAGATGTATTCGACTTTACCGGAAGCGAGTTGTGGAGAACTGGACAGTCAAATAGCACTGATATTATGTTGTGCTACCACGATTTGGATGCGTCACATGGCGAGTTTTTAGCAGAGCGTTTGCAGCATTACCTTCCTGGGGTCAATCTCTCGATACCAGAGAAATCTAAGGTTCGACACAACTTGCTTGACGATGCAACTATCATCGTCCCACTGATGTCAGGATGCTTTGTTAAATCTGCAGAACTCTCAGAAGAACTCAACACTGCTCTTTGCAGGCAACGTTTTTCCAACAGACTGGTTCTCTTTCCTATAGGTTTGGAACCACTTCCGTTGACTCCGGCCTACTCTCGATTGATATGGTCAGTTGTTTCTTGTAATGACAGAATATGGAAGAATCCTGGACTTTTTCGCCCGGAAAAAGATTTTAAAGTGGCCTATGCGGGAAATAAGTTCTGTTTAGACTTTTCAGCTCGTTTTATCGCCTTCATCCTTACACACCCAGTACTTTTTCAAGGCTCTTTTAAAACACTTCTTAGCACTGAGGAGCTTCTTGACTCAACTTTGACTTTCAGAGCAAACCGACAGGTTGACCCAGCGAGTAACAATCCTCTCTATTTCGATAAAGCAAGAGCTGGACATATGGTTTCAGAGGAAATTTTGACGCCAAAAAAACTCTGTCATGTAAACAGCGTAGAAGAGTTTTCAAGCACCCTCAAGGACGATGATACACAAAAGGAGAAAACGCTTCCGAATTTACCGCAACAAGATTCAAGCTCTATAACACCATCTCTTGCAAACTCTGCTATAAGCTGCATTTCACCAGCTGCTGACCCACCAAAGAGTCCAACAAAACTTCCGAAACAAGCCTCTGAAAATGAAGACGCTCCTGACCTCTCTACTGACGAAAGTGGTAGCACCAATGAAGACGTACAAAAGGTACGAAAAGAGGTCCCAGCCCCATTAGATTGCAGAGCACCTTTGCCGGAAAGCGAATTGAAACCAGATGAGCCCAAAGGAGATGAAAGAGGTAAGAAAGATATAGGTTTATTAAAACAACAACGCGACAAGCATCTGAAAAGCAAGTTGTGCTCTATGTCATAA

Transcript

rna-XM_065202510.1

AGCTAGGTGCGCAATATGGCTGCCTTGCTGCTCAAAGAGAAAATTCAAGTCGAGACGAACCACGGACCATGTGAAATTCACTTAAATTTTGGCAGTATAACAAAACTcgataaaaaagataaagttGACGTACTGGTTGTCTCAGCATTCCcagaTGACTATATTCCCACACCAACATCTGTCATCGGTGCCTTGCAAAGTGACTTAAAGATAAGTGTAAGGAAACTATCTAAGGATAAAGAAGAGGATCATAGACGCTTATTTTCATGCTGGTGGTCTAAGCCTTTGGCAAAGAAGTACAGCTATGGCAGAATACTTTGCTTTGAGGgtagtttcaagaaaaattcaagaccTCCGATGGTTGTAGGTGAAGTTTTCAGATGTCTAATCTCAATGTGTAAGGAGAAGGACATTAAAGTCATTATGCCACTTTTAGCTTCTGGAGATCAGGGCTACAACCAAGAAATGATGCTTCGTCTAATTGTTGAAGCAGCTGTCCATTGGATGAAAATTGGTTTACCATtaaaagttctgaaaattgttatctatgaaagaaatctagGTGGAGTTGACAAACATCCCTTGTTGTCATACTTCAGAGATCTAAAGGTTAAATGGGGTGAGATTATGGCCAAAGAGAATGAAGAATCAAAGGTGCACCCAATTGAGTATGATGTCTATCTTTCATACAATAATGCAGACCAGCAACTGGCAAATGTAGTTACTGAAAACCTTAAAGAAACCAACAACTCCATAAGAATTTTTACCAAGCATCAGACTCTCAATCAGAATGTTTCATGGCAAGAAGAAATTTACAAGgtCATGGTGGCAAGTGCACGTGTAATAACAATACTGAGTCCAAGATTCTTAGATGATGAAGCCTGTATTGAACAATATAACATTGCTCTTTGTTGCACCAGAAATATGAAGAGAGATTACTTAGCACCCTTTTACACTGATTCAATTGATGACATGCCAACATACATGTGTCTTATACAATATGTAGACTGCAGAACTGCGgatcaagataaaatttcGCAAGCTTGCAAGTCCCTCACAGATTGGCTGCAAATGCATTTGGCAGAGATAAAACATTTGGAATCAGAAACCCAAACTCTAAAAGTAGCGAAACCTTTTGTAAGAAATGAATATGATGTCTTTATCTCCTATTCCCACCAAAACTCAGACGTAGCCCATGTAATTCAGCGGTATCTGTCCCGGTTTTATCCAGAGTGGAACATATTCATTGACATAACAGAGTTGCAAACGGGCGTAGCATGGCAAGTAAAACTGTACAAAAGTATTGAGGCATCTCGTTATGTGATTACGCTGTTGGCTCCGCCTTACTTGCAGTCAAAAGTTTGTCAAGAAGAATACAACCTTGCGTCAGCATTGCACTCAGACCCGGCATACAGCACTAAATTGATTCCCATTCTAGTGGAGCCAGTTGAACGACTTCCAGTATGGTGTAGCAACTATACCCCTATTGACTGCAGAGACATGTCTGACAGAACACATGTCAGACTTATGGAGATTATCCAAAAGATCAAATTGTTTGAAGaatttgaGCTTTTAGAAGATCACAGGATGTCATCAGTTGAGCAAATAACATCAGACTGGCGGATAGAGCATACATTACGTGGATTGCAGTTCTTTGACGGTCTAGATACTCGAGATGTATTCGACTTTACCGGAAGCGAGTTGTGGAGAACTGGACAGTCAAATAGCACTGATATTATGTTGTGCTACCACGATTTGGATGCGTCACATGGCGAGTTTTTAGCAGAGCGTTTGCAGCATTACCTTCCTGGGGTCAATCTCTCGATACCAGAGAAATCTAAGGTTCGACACAACTTGCTTGACGATGCAACTATCATCGTCCCACTGATGTCAGGATGCTTTGTTAAATCTGCAGAACTCTCAGAAGAACTCAACACTGCTCTTTGCAGGCAACGTTTTTCCAACAGACTGGTTCTCTTTCCTATAGGTTTGGAACCACTTCCGTTGACTCCGGCCTACTCTCGATTGATATGGTCAGTTGTTTCTTGTAATGACAGAATATGGAAGAATCCTGGACTTTTTCGCCCggaaaaagattttaaagtgGCCTATGCGGGAAATAAGTTCTGTTTAGACTTTTCAGCTCGTTTTATCGCCTTCATCCTTACACACCCAGTACTTTTTCAAGGCTCTTTTAAAACACTTCTTAGCACTGAGGAGCTTCTTGACTCAACTTTGACTTTCAGAGCAAACCGACAGGTTGACCCAGCGAGTAACAATCCTCTCTATTTCGATAAAGCAAGAGCTGGACATATGGTTTCAGAGGAAATTTTGACGCCAAAAAAACTCTGTCATGTAAACAGCGTAGAAGAGTTTTCAAGCACCCTCAAGGACGATGATACACAAAAGGAGAAAACGCTTCCGAATTTACCGCAACAAGATTCAAGCTCTATAACACCATCTCTTGCAAACTCTGCTATAAGCTGCATTTCACCAGCTGCTGACCCACCAAAGAGTCCAACAAAACTTCCGAAACAAGCCTCTGAAAATGAAGACGCTCCTGACCTCTCTACTGACGAAAGTGGTAGCACCAATGAAGACGTACAAAAGGTACGAAAAGAGGTCCCAGCCCCATTAGATTGCAGAGCACCTTTGCCGGAAAGCGAATTGAAACCAGATGAGCCCAAAGGAGATGAAAGAGGTAAGAAAGATATAGGTTTATTAAAACAACAACGCGACAAGCATCTGAAAAGCAAGTTGTGCTCTATGTCATAAGCATTGAGCCAGGTATCGTGAAGCCGTACAGATGTCTTACGAACCGAAAGAGTGTGCATCTAAAATTCCTCACAGGAAATCTATGtatttctctttgaaaatggTGAAGAATTGGATTAGAGAAGATTGAAGAATCTACAGGATCAGTTATCAGCTCCACACTATTTCCACTTCCCTTTTCCTagtgaaaatgatttttgtacATGTTACACTTAGTTACTACTGCGGCGCACATTTGCCTTCTCGATGTCTCTTTTTTAATGCCTCCTTCCGTTTCTTTCAATTTGGTCCGCCTTTTATATAAGCCCCACAAAGAAAGGATAATTGACTTTTCCAAAGTCTGTTTGATATATAacgcaaaattttttttcgtttaATGACAAAACCATTTATTTGCTTGCACATTCATCACAAACATGTAAATGCTACATTAATACATATTTTGACCATCattcttttgttgaaaacattttgcaatcttaaagctgttgaattaaaaatgttaaatagGATTTTAGTTTTCAGAAATGAGGCAGTTAAATTTGTTACTGATCATGGCGTTTAATCTTACATGACAGTTGTAGCTAGACATCTGTTTAAACATAAGATATGGCTCATATAAATCGTTGATAACGTTAAATATTTAACATTAGTCGTTTTCTTTTAAAGGTGTTGCATAAAATACGGTAGCATAATAGCTAATCaattctgttgaaaattttaatcagTGTTTTCAGCTGattaaaatgtataaaattaGCCAGAGCCAAAAATGTGCACTAACATTTGATGATGAACATATTGCATATCAAAGTAACATTGAGCAAAGCTCGtattaaagaaagaagatgtaaataaattttgatttttctccaTTCATAACATTTTGTCTGAGGATAATTTTCCACGCTGAATGTCGAAAAAGAATCATATGGGTTTGAAAATGCTGAAATGTTGAATGTTGAAAATGCTCAGAGAATATGAGTggcatttgtttttaatatgcTTGGCATATCAAAGCGTAACCTCTATTTCGTAGTGGATAAATGCCACTTAAGGGCCTTGATTTCAGTTCAGTTTGATATTCAAGCAAACATGTCCATGATCCTGAACGATTTTTTATGATGGGAAGCTTTTTGTTCTAAGAGACCCCTATGTCCAGGGTTGGATACCAAAATGTTTGCAGATTGCAATGCTAGTCTAATTTTACCATGCGGTAAATCATTGGACTTGTTAAATCCGACTTTTGGTATTAAAACTGAAAGCATCTATACCAAATTTTTTCCGAGTTATGAAATATCCGACTTATGCGTTCAACTCTATTTAAATCAAGCTCGATCAAGGTAATGTTACTAAAGATAAACAATAAACTAATTGTAACAAATCCTATAAAGTACTTACCACAGAGATTTCAAACTTAAAAAGTAAACTGCATAACAGGATATTACTAAATTGTTGAAACTGGCTTCTCAAAGTACAGGGTTTGTCGATTTGagtaattttgctttaaattgtttattgtgaTGATCAATATCCTACGAATATTTGtcttgttgttttatttaataCGCATacacattttaaatttttgaaagttaaagCAAGACTCTGACTTTGATCCTATATT

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002633 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13676 all species →	TIR_2	TIR domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000157 all species →	Domain	Toll/interleukin-1 receptor homology (TIR) domain	Interproscan
IPR035897 all species →	Homologous_superfamily	Toll/interleukin-1 receptor homology (TIR) domain superfamily	Interproscan
IPR017279 all species →	Family	Toll-interleukin 1 receptor domain-containing adaptor protein, Tirap	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22662 all species →	TIRAP	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007249 all species →	Biological Process	canonical NF-kappaB signal transduction	Interproscan
GO:0032760 all species →	Biological Process	positive regulation of tumor necrosis factor production	Interproscan
GO:0032872 all species →	Biological Process	regulation of stress-activated MAPK cascade	Interproscan
GO:0034142 all species →	Biological Process	toll-like receptor 4 signaling pathway	Interproscan
GO:0035662 all species →	Molecular Function	Toll-like receptor 4 binding	Interproscan
GO:0035663 all species →	Molecular Function	Toll-like receptor 2 binding	Interproscan
GO:0043123 all species →	Biological Process	positive regulation of canonical NF-kappaB signal transduction	Interproscan
GO:2000343 all species →	Biological Process	positive regulation of chemokine (C-X-C motif) ligand 2 production	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_065058582.1.

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 →