Gene detail

Detailed information of ENSQPTP00000045891.1 in Actinia mediterranea

Genomic Location: chr11:13962648...13971969
NR annotation: XP_031553926.1, RNA exonuclease 1 homolog [Actinia tenebrosa]
Species Actinia mediterranea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSQPTT00000055169

ATGTTCTCGTCAGGAGGGTATTTTCGTAGCGTGAATTGTCCTTTTTTTGTCCATGGTTTGTGTCATCGTCCATACTGCCACTTCAGACACGCAAAACCTGGCCATGGGAGTACGACTAAGAATGCAGTAGTTAAAAGTTGCTTGAAATCTAAAGTTAATACTATAGGAACTAAGTGTGGAACTGAAGGGACTTCTTCATCGAAATCTCTAAAAAGGTCCACCAATGAAGAGTCAGTCACAAAATCTTCCCCTGATCCTAAACCCATTGTTCAAGCACAGAACAACGCAACAAAAACTAATACAAATTCACTCACAAATATAAAAGATGCAGATGAACCACCACGGTCCAAGGAATTACCAAGTTCTAAGGAAGAAAGTGAGAAAAAAGATTTACCTCagaattcaaagaaaattcctTCATTTCTAGATTCTTTAGAGAAGATTGAACAAGCTGTGAATGAGGCATCGGAAAGTTTATTGATTCATAATAATACAAAAGGATTAAGTTGTTCTGCGAGCAATAATCCTAAAGATTCAAAACGTTTATCTAAAAATCAATCATTAGTTAGTACTGAAAAAAATGACCAAGCAACGAAGGAGGATAGcaataataaaattgaaaataaaggaGAAGAGATAGCAAAAGATTTACAGAGTGAGGAATGTCAAGATATCAATATTTCAACAGACAGCAATAAATCTGCAAAATTTAGTGGTATTGATGAAATATCTGTAAGCAAGGGCAGAGAACTCAAGATTACTGACAATGAATTGGAGAAATTGGTTAAAGTTGATTCTAAAAAAGTCTCAATGGATTCATCAAAGGAAGGCATTGAGGATGTTTCTAGAGAAACTTTACCAGATGGAAGATCAAAAGACCAGAAAACAGAATCTACAGTtttaggaaagaaaagaaagtcaTCCAATATTAATGAtctggaaataaaaaaagcaaagataaaaaagcaaaattcACACGACGATTCAGCTAAGCTTGAGAGAAAGGGTTTATCTTCTGATTCTAAAGACACaagtaaaacagaaaaaacacAGATTCCTACTCCTAACAAGAGGGATAATTGTGACAGAAAACACTCAACTTTgaaacaaaaactaaaaacaaagcCAGAACTTAAAGTTGTGGACCTTGATTTTTTTAGCTCTCCAAAGAAAGTGAAGTCGAGCAAAACAGACtcaaaagagaaaacaaaaagcaaaaaagaacCTTCAAAAGAGGAGAGAAAAGCCCAGAATTGTCAATCGCAGCTTAAAACATTGCGAAGAAATTCAGATAGTAAACGGTCCatgaaacaaaaattaaaacaaaaggaaTCAAAGGAAACAATTAATTCAAGGAAATCAAAAGTACATGGTAACGTAACTAAGGACACATCTGTTCCCTTGACAACATCATTATTTGAGAGTGACGATGAAGTAAGATTTAGCAGCGATAGTCTAAGTGGTTCTGAGTCAGACACTGATCCTGTAGACAGCAGTACAGACATGCTGAGGGAGATATTTGATAATTATGACCCTCAAAGGGATCTACGAAATCCTTCGTCAAACACAAAAAAGGTTAAAGAATCTTCATCACGGTCATCAAGGATGCCATCTTCCAGTTCTACCCCAGAAAAGGAGATGCAGCAGAAAGCTGTTGATTTACCAGGATTGGGCAAGAAACAAAGAGTTGCACATACTGCTAGTTATTTAGTGCAAAGAAAATCAAGTAACATCAATCCTATTCGAAGAGTTCCCAAGACAATAGCAAGCTCCTCTAGTGCATCCTCCACACAAGACCAGtcaaaagaGTACAACGTACTTCAGGGCAAGAAAAGAGTAGCACATCAACCAAGGCCTGCCAGTCAGAGCTCCCTACCACGCCCCCGGATACCTATTGAATATGGCGCTAAAGTACCACAGAGTTTCCGTCAGAGATACCTGGATAAGATTGTCGATGAACACCTCAGACTGTGTGCCTTGGAGCAAGAAGCATTTGACAAGGCAgtggaagaagaaaagagcTTGTATAACCGCAGTACCAGAAGACACATGTATCTAAACCTGTGTATCAATGCAATCAAGAATCTGCGCAGTCAACCAACACCTGAGCATGAACCAGAATCAACACAGACGAATACAGCTACTGCTACAGTATCTACACGTCGTGTATCAGCAACAGCTATTGATAGTCAAAGTCCAAAGAAGATTGATGTAGACCATCTTACAGAGGAGATGTTCTACAATTTGCTTTTTCCGTACATTCTTACTGAAGAAGAACTCGTAGAAAATGGTTTTCCACGCTCTTCGCTAACAACGCCTGGAAAAGTAACCTTTAAATCGAGAAAACCTAAAACGACTCCAAGTAAAGATCCTAACCGTCGTATCTGTTGTCGTTGCGGCACACCGTACACAGTCCTTGAAGATGGCACTTATTTCAGGCCAGAGGAATGTGTCTACCATGTTGGACGGCTACTGAAGAGAAGAAttgCTGGTGAGGTTACCACTACCTACTCGTGTTGTGGTGGCGATGGTTCGACTCCTGGATGTGCTGTGGGCAAGGTTCACGTGAGTGAGGGTAAGGATGCAACTGAAGGTTTCATGACGACTATAGTCAGTCCACTAGCAGGAAACCAAAAGAAAGTATTTGCCGTTGATTGTGAGATGTGCTATACTGTTGCTGGATTAGAATTGACGCGCGCAACTGTGGTTGACTGGAAACTGGAAAAGATTTATGATACATTCGTCAAACCGGACAATCCTGTTTTGGATTACAACACTAGGTTCAGCGGTGTTACGGAGGAATGCCTGCGCGGTGTCAAGACCAGCATCAGAGAAGTCCAGGCTGTACTATTGAGTATAATACACCGAGATTCGATTCTAGTGGGACACAGTCTAGAAAGCGATCTTTTGGCGCTTAAGCTCGTCCATAGTAAAGTAGTTGATACATCAGTGGTGTTCCCTCATCGCCTTGGACCTCCGTACAAACGAGCACTACGGACGTTAACTGCTGAGTTCTTGAAGCAAATTATACAAGATGACGAGGCTGGCCATGACAGCCACGAGGACGCAAAAGCAAGTCTTGAGTTGATGTTATACAAAGCTAAAGAAGACTtgaagaagaaggaaagaaacaagaaataa

Transcript

ENSQPTT00000055169

TTTTGCTGTTTCTCTTTTTTCCAGGATTTCCCTTCCAGAGGTGGTTGGTACGGGGTACTGTGTACTGGGTGCTGGGTAACGGGTAACCCCACCCATCCTATTCCCAAACCAATTAGTTTACAGGTCTCCATAATTCCCGCTCGTCCATGATGAAGACCTGGTTACCGAGTATATTCATTGGAACAAGATGGCGCTGTGTTGAacgaaaatgaacaaaaacaccgagaaaaaaacatgaaaatgcTCCACTCTCGAACACTTAATAGTGAAAACTATCGCCCAAGGCTGAAGGAAAGATAATGTTCTCGTCAGGAGGGTATTTTCGTAGCGTGAATTGTCCTTTTTTTGTCCATGGTTTGTGTCATCGTCCATACTGCCACTTCAGACACGCAAAACCTGGCCATGGGAGTACGACTAAGAATGCAGTAGTTAAAAGTTGCTTGAAATCTAAAGTTAATACTATAGGAACTAAGTGTGGAACTGAAGGGACTTCTTCATCGAAATCTCTAAAAAGGTCCACCAATGAAGAGTCAGTCACAAAATCTTCCCCTGATCCTAAACCCATTGTTCAAGCACAGAACAACGCAACAAAAACTAATACAAATTCACTCACAAATATAAAAGATGCAGATGAACCACCACGGTCCAAGGAATTACCAAGTTCTAAGGAAGAAAGTGAGAAAAAAGATTTACCTCagaattcaaagaaaattcctTCATTTCTAGATTCTTTAGAGAAGATTGAACAAGCTGTGAATGAGGCATCGGAAAGTTTATTGATTCATAATAATACAAAAGGATTAAGTTGTTCTGCGAGCAATAATCCTAAAGATTCAAAACGTTTATCTAAAAATCAATCATTAGTTAGTACTGAAAAAAATGACCAAGCAACGAAGGAGGATAGcaataataaaattgaaaataaaggaGAAGAGATAGCAAAAGATTTACAGAGTGAGGAATGTCAAGATATCAATATTTCAACAGACAGCAATAAATCTGCAAAATTTAGTGGTATTGATGAAATATCTGTAAGCAAGGGCAGAGAACTCAAGATTACTGACAATGAATTGGAGAAATTGGTTAAAGTTGATTCTAAAAAAGTCTCAATGGATTCATCAAAGGAAGGCATTGAGGATGTTTCTAGAGAAACTTTACCAGATGGAAGATCAAAAGACCAGAAAACAGAATCTACAGTtttaggaaagaaaagaaagtcaTCCAATATTAATGAtctggaaataaaaaaagcaaagataaaaaagcaaaattcACACGACGATTCAGCTAAGCTTGAGAGAAAGGGTTTATCTTCTGATTCTAAAGACACaagtaaaacagaaaaaacacAGATTCCTACTCCTAACAAGAGGGATAATTGTGACAGAAAACACTCAACTTTgaaacaaaaactaaaaacaaagcCAGAACTTAAAGTTGTGGACCTTGATTTTTTTAGCTCTCCAAAGAAAGTGAAGTCGAGCAAAACAGACtcaaaagagaaaacaaaaagcaaaaaagaacCTTCAAAAGAGGAGAGAAAAGCCCAGAATTGTCAATCGCAGCTTAAAACATTGCGAAGAAATTCAGATAGTAAACGGTCCatgaaacaaaaattaaaacaaaaggaaTCAAAGGAAACAATTAATTCAAGGAAATCAAAAGTACATGGTAACGTAACTAAGGACACATCTGTTCCCTTGACAACATCATTATTTGAGAGTGACGATGAAGTAAGATTTAGCAGCGATAGTCTAAGTGGTTCTGAGTCAGACACTGATCCTGTAGACAGCAGTACAGACATGCTGAGGGAGATATTTGATAATTATGACCCTCAAAGGGATCTACGAAATCCTTCGTCAAACACAAAAAAGGTTAAAGAATCTTCATCACGGTCATCAAGGATGCCATCTTCCAGTTCTACCCCAGAAAAGGAGATGCAGCAGAAAGCTGTTGATTTACCAGGATTGGGCAAGAAACAAAGAGTTGCACATACTGCTAGTTATTTAGTGCAAAGAAAATCAAGTAACATCAATCCTATTCGAAGAGTTCCCAAGACAATAGCAAGCTCCTCTAGTGCATCCTCCACACAAGACCAGtcaaaagaGTACAACGTACTTCAGGGCAAGAAAAGAGTAGCACATCAACCAAGGCCTGCCAGTCAGAGCTCCCTACCACGCCCCCGGATACCTATTGAATATGGCGCTAAAGTACCACAGAGTTTCCGTCAGAGATACCTGGATAAGATTGTCGATGAACACCTCAGACTGTGTGCCTTGGAGCAAGAAGCATTTGACAAGGCAgtggaagaagaaaagagcTTGTATAACCGCAGTACCAGAAGACACATGTATCTAAACCTGTGTATCAATGCAATCAAGAATCTGCGCAGTCAACCAACACCTGAGCATGAACCAGAATCAACACAGACGAATACAGCTACTGCTACAGTATCTACACGTCGTGTATCAGCAACAGCTATTGATAGTCAAAGTCCAAAGAAGATTGATGTAGACCATCTTACAGAGGAGATGTTCTACAATTTGCTTTTTCCGTACATTCTTACTGAAGAAGAACTCGTAGAAAATGGTTTTCCACGCTCTTCGCTAACAACGCCTGGAAAAGTAACCTTTAAATCGAGAAAACCTAAAACGACTCCAAGTAAAGATCCTAACCGTCGTATCTGTTGTCGTTGCGGCACACCGTACACAGTCCTTGAAGATGGCACTTATTTCAGGCCAGAGGAATGTGTCTACCATGTTGGACGGCTACTGAAGAGAAGAAttgCTGGTGAGGTTACCACTACCTACTCGTGTTGTGGTGGCGATGGTTCGACTCCTGGATGTGCTGTGGGCAAGGTTCACGTGAGTGAGGGTAAGGATGCAACTGAAGGTTTCATGACGACTATAGTCAGTCCACTAGCAGGAAACCAAAAGAAAGTATTTGCCGTTGATTGTGAGATGTGCTATACTGTTGCTGGATTAGAATTGACGCGCGCAACTGTGGTTGACTGGAAACTGGAAAAGATTTATGATACATTCGTCAAACCGGACAATCCTGTTTTGGATTACAACACTAGGTTCAGCGGTGTTACGGAGGAATGCCTGCGCGGTGTCAAGACCAGCATCAGAGAAGTCCAGGCTGTACTATTGAGTATAATACACCGAGATTCGATTCTAGTGGGACACAGTCTAGAAAGCGATCTTTTGGCGCTTAAGCTCGTCCATAGTAAAGTAGTTGATACATCAGTGGTGTTCCCTCATCGCCTTGGACCTCCGTACAAACGAGCACTACGGACGTTAACTGCTGAGTTCTTGAAGCAAATTATACAAGATGACGAGGCTGGCCATGACAGCCACGAGGACGCAAAAGCAAGTCTTGAGTTGATGTTATACAAAGCTAAAGAAGACTtgaagaagaaggaaagaaacaagaaataatGAACGTTGATGAAGCGACAGGATCGCTGGAAGGATTTCAGTGGCAGCAAACACTACTGTTTATCAAAGAATAGAATCGACTTTGGACTAAACTTTAAGAAAACTCAACTTAGATAACCCAGAATTATTTCAGTTTTGATAGTTAAGCTGTGATTAAGTGTGAAGACAGTCGAGTTTTGGTGTTATTAATAGTACATTAGTTCGCTGTTTGAGGCAAATTCTTTATTCCAAAATACCCTTGAGCAGAAAAGTCATACTACGACCTATTTTCGAAatgtagaaaaagaaaaatccaaGAGATGTTTAtatagaaatatttaaaagaaattacaAGCTCTATTGTTCTCTATACTAGCGTGTAATGAAACTAGACTGTGACCATAACACTATTATGAAAGTGTTGTTTCACTTCTGTTTTCATATCATTTTCGTGTGATGTTTGCTTCCGTGTTATTTCAGCCGATCCATCCCCCGTAGGGATACGGACCAGAAAATCCTTTAGGATTTTTAGCATTTTTTCTAGTCATGGCTTGTACTCCTTCGGTCTATCAGAGACTGGGGCAGAGAGCTTTGATTGGTCTAGAGGTAAGGCGCTCTCA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q7TT28	RNA exonuclease 1 homolog OS=Mus musculus OX=10090 GN=Rexo1 PE=1 SV=1
Q8N1G1	RNA exonuclease 1 homolog OS=Homo sapiens OX=9606 GN=REXO1 PE=1 SV=3
Q8IX06	Putative exonuclease GOR OS=Homo sapiens OX=9606 GN=REXO1L1P PE=5 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001363 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF15870 all species →	EloA-BP1	ElonginA binding-protein 1	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR031736 all species →	Domain	RNA exonuclease 1 homolog-like domain	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR013520 all species →	Domain	Exonuclease, RNase T/DNA polymerase III	Interproscan
IPR047021 all species →	Family	RNA exonuclease REXO1/REXO3/REXO4-like	Interproscan
IPR034922 all species →	Domain	RNA exonuclease 1-like, exonuclease domain	Interproscan
IPR000571 all species →	Domain	Zinc finger, CCCH-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12801 all species →	RNA EXONUCLEASE REXO1 / RECO3 FAMILY MEMBER-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0004527 all species →	Molecular Function	exonuclease activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0046872 all species →	Molecular Function	metal ion 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
K14570	REX1, REXO1, REXO5, RNH70; RNA exonuclease	EC:3.1.-.-	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 Actinia mediterranea 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 Actinia mediterranea, 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 →