Gene detail

Detailed information of XP_073242894.1 in Porites lutea

Genomic Location: chr5:20833836...20873727
NR annotation: no NCBI-NR hit recorded
Species Porites lutea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC140937250

ATGTCCCTTGCCATAGTGAAATTTGTACTGGTTGTGAACAAGGTTTCAAAGTTGTTCCTGGAAGTATTTGAGTGCCCGGAAATTCAAGGAGTAATTTTTCTTCAAACTGTTGTGAATTTTGTCCAGCACCAAGGGGGAAGAAAACTTCATTCCCAACTAAAAAATCTTGTCAATGACAGCAGACAGCAATGTATCATATTCAGCAATGAGTTTTGTGATGGAGCATACGTACCTCGGGAGCCGGGAGAGTCTTCAGAAGACTGGCAGTGGAGGTCGGTTTACAATGCGGCTGTGTGGTATCATAATCATTTACAACAAATGATTCCAATTGTTGTACTTACTGAAGACCAAGAGATGGCAGCAAACTATGAAAGCAAGCATCTTGGTGTGTACGTTTTGAGTACTGAGAACTACTTGAATAATTTTTATCCTAATATACAATCTGTACTTGAATTGTACTACTCCCTGGCCGCTGTGAATGCTGAGTTAAAAGAATCAGCCACAGAGGTGGTAACAAAGGAATACCTCGAGTACCTGCCTTTAGAAGTTCTGGAAGCTGGGATAAAATCGGGTCGGTTCTTACAGGGCTGTCTTAATGTCAACAAACACTGCGCACAAGACGAGGCATTTGTCCAGGAGTCAGGGGAGAGTACTTCAAGCAGCAAAGATTCCCTAGATTCAGATGTATTAATCTGTGGCATGGCAAATAGAAATCGAGCGGTCCATGGTGATATTGTGGTTGTTGAATTGCTACATAAATCTCAGTGGAAGGGCAGATCTATTTCCCTTAAGAGCAGGAATGAAGGTGAACAACTGTCTGTTGGAGAGCAGAGTGATGTAATGCCTACTGGCCGTGTGATTGGAATATTGCAAAGAAACTGGCGCGATTATGTTGCAAGTTTTGACGAGAACGAGGAGTTGCAGGGAACAAGAAAAATAGCGGGAAAGGTTGTTGTTGTACCTTGGGATTACCGTATTCCGAAGATTCGAATCAGCACCAGACAAGTTGACAGTCTACGAGATCAAAGAATCGTCGTGCGGGTCGATTTTTGGGAAGTAGACTCCATGTACCCAAGTGGTCACTTTGTACGGTCCCTGGGCCCTATTGGTAACCTGGAAACAGAGATTCAAGCTCTGATGGTGGAGCATTCCCTGGCAGTGCCCTCCTTCACTGAAGCCCAGCTGAAGGAGCTTCCTAGCAACACACCAGAGAACCCCTGGGTAATGACCGAGGAGGAAATAGCAAAGAGGCGAGATCTACGTAAATCACACCTTATCTTCAGTATTGATCCCAAGGGATGCGAGGATGTAGATGATACGTTGTCTGTTAGGTGGCTTAAACATGGAAAGATAGAACTTGGAGTCCACATAGCGGATGTGTCTCATTTCGTTAAGCCAGGATCGCTAACAGACGCTGAAGCAAGGTTCAGGTCGACCACAGTGTATTTGGCGGATAGACGATTTGATATGTTACCAGAAGTGCTCAGTGCTGACCTGTGTTCATTGATTGGTGGCGTAGATAGATACGCTGTAAGTGTACTTTGGGTTTTGGATGCAGACTACAATGTTCTCAAGACCTGGTTTGGACGTACTGTTATTCGCTCTTCCTACAAACTGTTTTACGAGGCAGCTCAGGCTATTGCCGATGGAGAGACCACAGAAGAAGATCTCATTAACGACATACCAGAGTTACAGAACATGGAGGTCAAAATAGCCTCAAAAAGGTTATCTGAAATTCGCAAATCGGTGCTGAAACTCATGGATATAGCAAGAGTAATTAAAGCTAGAAGAACTGTTCATGGTGCTCTGGAACTAGAGGGTGTAGAAGTTCAAGTCCAAATTGGCGATAAAAAAGATATAAAGGATTTGATTCCTAAAAAGCCCTTAGAAATCCATGAAACGGTCGCAGAATGTATGATATTCGCCAATCACTGGGTTGCAAAGAAGATTGCTGAAAGGTTTGCCAATGCGGCTTTGTTGCGTCATCATCCGTTACCAAGGAAACAACATTTCGCAAACCTCGTTCACTGTGCAGCTTCTAAAGGATTTTCAATTAATACAAACTCGAACAAATCACTGGCAGACTCGCTAGACGAATGTGTCGATGCAAAGGATCCAAACTTTAACAAGATCATTCGTTCCCTTGCTACTCAAGCCATGTCAAATGCCCTTTACTTCTCTACTGGCTCCTTGTCTCCAGAAAATTTCTTTCACTATGGTCTTGCCTTGGATCGCTACACACATTTCACCTCACCGATTAGGAGATATGCTGATGTTATTGTTCACAGGCTATTGATGGCTGCTGTCGAGAGTGACGACATTGCTAAACTCCCAAACAACAAGGAACTGCAAGAGATTTGTCATCATATTAACGTTAAGCACAGGGCTGCCCAAAACGCTCAAAAGGAATCTGTCGATCTTTTTCAAAGCATCTTTTTTCAAGACTTACCAGAAGATGACGATAGACGAAACTGTGACGCCTTAATTTTTAGTCTCAGAGCCAACGGCGTTCTTGTGTTTGTTCCACGTTACAGTTTAAAAGGTCCAGTATATCTTAAGGACAAAACAGGACAAGTTGTAACTCCTCAAGAAGATTGTGTTGTCTTTGGCCCTGGTCTGCTTACTCGACATGAATTTCACTTGACGGTCAGGAATTCTGCTGGATCTTTCCATTTTCGACTCTTTGACCACGTTAAGGTACGAATATCTGTCAATAAATCTCGTGCGCATTCTCAATCCTTGAAGCTGGAACTACTTTCCCTAGAAACGAGCCAGAGTCCCCCAGTTACCGAAATAAACCCTCAAGATGAAACAACTAATAAAATGAAGAGAAGTGAACTTGTCAAGGAAGTGAAATCAAGCCGAGATGAACAGAGCAAAGACACAGGAACGGAAAGACTTGATAATGAATTCCAGAAACTGAAATCAGAATTTGCTCAAACTCATGAAAGTGTCAGCTTCTATTGTCTAATGGAGTTCTTCAGAGAAATGTCAATGAGGGATGATCATCAAGGTGTGGTTTAA

Transcript

rna-XM_073386793.1

TCGGTGGTGGGGAGAAAGATGCATGGGTTATTTGCTGTCAAGATAGTAAAatgattaaaacaaataagttaCTCAGGCTCAAGACTAAGAACGGCCGATTGTTGGACGTTGTCCGGGAACACTACTTACGTAAAGATGTCCCTTGCCATAGTGAAATTTGTACTGGTTGTGAACAAGGTTTCAAAGTTGTTCCTGGAAGTATTTGAGTGCCCGGAAATTCAAGGAGTAATTTTTCTTCAAACTGTTGTGAATTTTGTCCAGCACCAAGGGGGAAGAAAACTTCATTCCCAACTAAAAAATCTTGTCAATGACAGCAGACAGCAATGTATCATATTCAGCAATGAGTTTTGTGATGGAGCATACGTACCTCGGGAGCCGGGAGAGTCTTCAGAAGACTGGCAGTGGAGGTCGGTTTACAATGCGGCTGTGTGGTATCATAATCATTTACAACAAATGATTCCAATTGTTGTACTTACTGAAGACCAAGAGATGGCAGCAAACTATGAAAGCAAGCATCTTGGTGTGTACGTTTTGAGTACTGAGAACTACTTGAATAATTTTTATCCTAATATACAATCTGTACTTGAATTGTACTACTCCCTGGCCGCTGTGAATGCTGAGTTAAAAGAATCAGCCACAGAGGTGGTAACAAAGGAATACCTCGAGTACCTGCCTTTAGAAGTTCTGGAAGCTGGGATAAAATCGGGTCGGTTCTTACAGGGCTGTCTTAATGTCAACAAACACTGCGCACAAGACGAGGCATTTGTCCAGGAGTCAGGggAGAGTACTTCAAGCAGCAAAGATTCCCTAGATTCAGATGTATTAATCTGTGGCATGGCAAATAGAAATCGAGCGGTCCATGGTGATATTGTGGTTGTTGAATTGCTACATAAATCTCAGTGGAAGGGCAGATCTATTTCCCTTAAGAGCAGGAATGAAGGTGAACAACTGTCTGTTGGAGAGCAGAGTGATGTAATGCCTACTGGCCGTGTGATTGGAATATTGCAAAGAAACTGGCGCGATTATGTTGCAAGTTTTGACGAGAACGAGgaGTTGCAGGGAACAAGAAAAATAGCGGGAAAGgTTGTTGTTGTACCTTGGGATTACCGTATTCCGAAGATTCGAATCAGCACCAGACAAGTTGACAGTCTACGAGATCAAAGAATCGTCGTGCGGGTCGATTTTTGGGAAGTAGACTCCATGTACCCAAGTGGTCACTTTGTACGGTCCCTGGGCCCTATTGGTAACCTGGAAACAGAGATTCAAGCTCTGATGGTGGAGCATTCCCTGGCAGTGCCCTCCTTCACTGAAGCCCAGCTGAAGGAGCTTCCTAGCAACACACCAGAGAACCCCTGGGTAATGACCGAGGAGGAAATAGCAAAGAGGCGAGATCTACGTAAATCACACCTTATCTTCAGTATTGATCCCAAGGGATGCGAGGATGTAGATGATACGTTGTCTGTTAGGTGGCTTAAACATGGAAAGATAGAACTTGGAGTCCACATAGCGGATGTGTCTCATTTCGTTAAGCCAGGATCGCTAACAGACGCTGAAGCAAGGTTCAGgtCGACCACAGTGTATTTGGCGGATAGACGATTTGATATGTTACCAGAAGTGCTCAGTGCTGACCTGTGTTCATTGATTGGTGGCGTAGATAGATACGCTGTAAGTGTACTTTGGGTTTTGGATGCAGACTACAATGTTCTCAAGACCTGGTTTGGACGTACTGTTATTCGCTCTTCCTACAAACTGTTTTACGAGGCAGCTCAGGCTATTGCCGATGGAGAGACCACAGAAGAAGATCTCATTAACGACATACCAGAGTTACAGAACATGGAGGTCAAAATAGCCTCAAAAAGgTTATCTGAAATTCGCAAATCGGTGCTGAAACTCATGGATATAGCAAGAGTAATTAAAGCTAGAAGAACTGTTCATGGTGCTCTGGAACTAGAGGGTGTAGAAGTTCAAGTCCAAATTGGCGATAAAAAAGATATAAAGGATTTGATTCCTAAAAAGcCCTTAGAAATCCATGAAACGGTCGCAGAATGTATGATATTCGCCAATCACTGGGTTGCAAAGAAGATTGCTGAAAGGTTTGCCAATGCGGCTTTGTTGCGTCATCATCCGTTACCAAGGAAACAACATTTCGCAAACCTCGTTCACTGTGCAGCTTCTAAAGGATTTTCAATTAATACAAActCGAACAAATCACTGGCAGACTCGCTAGACGAATGTGTCGATGCAAAGGATCCAAACTTTAACAAGATCATTCGTTCCCTTGCTACTCAAGCCATGTCAAATGCCCTTTACTTCTCTACTGGCTCCTTGTCTCCAGAAAATTTCTTTCACTATGGTCTTGCCTTGGATCGctacacacatttcacctcacCGATTAGGAGATATGCTGATGTTATTGTTCACAGGCTATTGATGGCTGCTGTCGAGAGTGACGACATTGCTAAACTCCCAAACAACAAGGAACTGCAAGAGATTTGTCATCATATTAACGTTAAGCACAGGGCTGCCCAAAACGCTCAAAAGGAATCTGTCGATCTTTTTCAAAGCATCTTTTTTCAAGACTTACCAGAAGATGACGATAGACGAAACTGTGACGCCTTAATTTTTAGTCTCAGAGCCAACGGCGTTCTTGTGTTTGTTCCACGTTACAGTTTAAAAGGTCCAGTATATCTTAAGGACAAAACAGGACAAGTTGTAACTCCTCAAGAAGATTGTGTTGTCTTTGGCCCTGGTCTGCTTACTCGACATGAATTTCACTTGACGGTCAGGAATTCTGCTGGATCTTTCCATTTTCGACTCTTTGACCACGTTAAGGTACGAATATCTGTCAATAAATCTCGTGCGCATTCTCAATCCTTGAAGCTGGAACTACTTTCCCTAGAAACGAGCCAGAGTCCCCCAGTTACCGAAATAAACCCTCAAGATGAAACAACTAATAAAATGAAGAGAAGTGAACTTGTCAAGgaaGTGAAATCAAGCCGAGATGAACAGAGCAAAGACACAGGAACGGAAAGACTTGATAATGAATTCCAGAAACTGAAATCAGAATTTGCTCAAACTCATGAAAGTGTCAGCTTCTATTGTCTAATGGAGTTCTTCAGAGAAATGTCAATGAGGGATGATCATCAAGGTGTGGTTTAAACAGTGCTCCATGTTAGAAAACTAACCTAAAAATCCTGGAATCGCAGACTCGATAATGAATTGCAGAAATTCAAATCAGACTTTGCCCAGACCCATGAAACTTTCATTGCTGTGACTGTTTAATGGGGTCTTTGGGGTAAAGTCAAAGACAGATGACACTTGTGGGCTATAAACGCTACCCCATACAAAAGACATTCGGCCAACTTAAAACCTACAGATGGGACCAGGGACTTAATTTAAAGCGACATTTCCGTTGAAGTTCCTCGGAAAATCGGGCGAGAGAGGCAGAGAAAAACAAACTGCGCCATCATAACGTCATTTTCATAGTCTATAGACCATTAGCTcccgaccaatcagcgcgctaGAAATCGCTTGGTTATTGTAAAAATTCCATAACCATCAAATGGTTGCTTGTTTCTTTAACTGTAATTATTTTCCTGACTAAATGTGATTAACCAaacgttaaaagaaaaaaataataaaaattaatagtgACAACACGCTggtgtaaaaataaattacatttaTATATACGGTTCTTTCAAAAAGGACCGCACATAATAGGTTTTAATTAACGTTCGAAGGAAAAAACTGTATATCTTTATGTTTTGTAAGAAAATGAGTTCTTTATGCGCGCCGGTTAAGGTAGAAATCAAACTCTTCACGGAATCATTGACAAACATAGTCCTGGTTACCCTTTAAAGGAGTACTCTTGTTA

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001442 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17216 all species →	Rrp44_CSD1	Rrp44-like cold shock domain	Domain	Interproscan
PF17215 all species →	Rrp44_S1	S1 domain	Domain	Interproscan
PF17849 all species →	OB_Dis3	Dis3-like cold-shock domain 2 (CSD2)	Domain	Interproscan
PF00773 all species →	RNB	RNB domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR033771 all species →	Domain	Rrp44-like cold shock domain	Interproscan
IPR033770 all species →	Domain	Exosome complex exonuclease RRP44, S1 domain	Interproscan
IPR022966 all species →	Conserved_site	Ribonuclease II/R, conserved site	Interproscan
IPR041505 all species →	Domain	Dis3-like cold-shock domain 2	Interproscan
IPR050180 all species →	Family	RNR Ribonuclease	Interproscan
IPR001900 all species →	Domain	Ribonuclease II/R	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23355 all species →	RIBONUCLEASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000175 all species →	Molecular Function	3'-5'-RNA exonuclease activity	Interproscan
GO:0000177 all species →	Cellular Component	cytoplasmic exosome (RNase complex)	Interproscan
GO:0016075 all species →	Biological Process	rRNA catabolic process	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0004540 all species →	Molecular Function	RNA nuclease 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
K18681	DIS3L; DIS3-like exonuclease 1	EC:3.1.13.-	Messenger RNA biogenesis	ko03019	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 Porites lutea 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 Porites lutea, 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 →