Gene detail

Detailed information of ENSXFYP00000052265.1 in Duncanopsammia axifuga

Genomic Location: chr9:4323840...4326694
NR annotation: MCP3888847.1, hypothetical protein [Desulfobulbaceae bacterium]
Species Duncanopsammia axifuga · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSXFYT00000058495

ATGGGGCATCTTTCGATTTCTCAGAGACAGGGCATCATTCGACTCATTCCAAAGAAAGACAAGGACccgctttatttaaaaaattggagGCCTTTGTCTTTATTAAATGTGGACTATAAAATTGCTACAAAAGTGCTAGCATTAAGACTAAAAAAGATTCTCCCTCTAATTATTAGCAGCGCACAAACTGGGTATGTTGAAGGTAGGTTTATTGGGCAAAATATCAGGTTGATTTCAGATATACTGAGCTTCACGGCTGAACAAAATATTGAAGGCATAGCTAcgtttattgattttgaaaaagcctttGACAGTTTAGAATGGGAGCTCCTGTCAAAAGCCAtagaaacctataattttggcaaTGATTTTAAAAGGTGGGTTAAAGTTATTTATCATAATATTTCAAGCTGCACGATAAACAATGGTTTTTCGTCACCCTTCTTTAGTTTATACCGTGGAGTTAGACAGGGATGTCCGCTCTCTGGCATGTTGTTTATACTTGCTGTTGAGATTTTATCGTGTGCGATCAGGTCAGATCATTCGATTGTAGGCATTCAAGTCAAAGAGAAGGAAATAAAACTCGCTCAATACGCGGATGATACAACAACTTTTGTTAAAGATGGCTTTTCGCTCGGAAGGCTCCTAGAATTATTGAACCAATTCGAAGAATGTAGCGGCTTAAAGATTAATCCAACCAAGTCAGAAGCCATCTGGCTTGGGAAAAATAGGAATAGCATAGCCAAACTCTACGATCTTAAATGGCCTCGGGAACCGGTAACCGCTTTAGGAACCGCATTTTCGTATGATAGTGACAAATGTGAAGTAAAGAACTTCCATGATAAAGCAACAAAAATCCAGAAGATGTTTAATCTATGGTCACAGAGAGATTTATCCCTTTATGGCAAGATCACAATAGCCAAAACACTTGGCCTATCTAAGATGATCTTTTCTAGTGCTTGCCTCCCCACCCCGCCTCACATTGTATTAAAAGTTGATAAGATGGTATCTGCCTTCGTTTGGAATAACAAACCTGCTAAAATTAAAAGGGAAAGCATGATCGGACCAAAAGAAGAAGGCGGTTTAGATCTTCCCGACTATGACTCTATTAAAAAGTCGTTATCTGTAGCCTGGGTCAAAAGAATGATTGAAGGGTGCGATCAAGACTGGATGGCTATTCCCTCCTTCTATTTGAACCAAGTCGGTGgaacttttatttttgaatGTAACTATGAAGTGGGTTTGCTTGATCTCGAGGGCTTGCCAGAATTTTATATAAATGTACTCAGAGCATGGTCTGAAGTAAAAAATGAATGCTCGCCCGAGGACTGGTCACAAGTTCGTGACGAAATTTTATGGAATAACAAGAATATAACTATCGAAGGAAAGTCCATTTATTATAGAGACTGGCATGCGGTTGGGATCGAAAGAGTAAAAGATCTTCTAAGTAGCGAAAATAAGTTTATGTCATTTCACAGCGTGATTCAAAAAGTAGGTAAGCGTTTTCCCTTTACCAAATTGCTCGGACTAATCCatgctatcccttacgtttggaAGCAAATATTAAGAGCCAAATGTACGGTAGACAATGAAACACAACACTGTAATAAGGTTGTGCTTCAGCCTGCGAAAAAAATATCATGTAAACACGCCCGTCGTATTCTTGTCGCTAGAAAATTTAAAGAACCTCTAGCAAACAATCGCCTGCGCAGATTGGGTGTTGAAGATATagaaaaaatcaatgaaattcatagtctttcttttagaatgacaaaagaaacgaagttaaatatttttcaattcaaCAGCAGCCGAGCAGTTTACAAACTGATGGCGGTTATTGTTCACATGGGAACAGTTGACGATGGACATTACATTACTTATCGCAGATTTGAAGCTGAGCATGCGTCGAAATGGCTTTACGCCTCGGATGAATTCGTGGAGAGCGTGTCACGTGATCAAGTCTTATCAAGCTGCGCTTACATGCTTTTCTATGAGAGAACTAGCAGGAACCATTATGGGCTCCCGAACTAG

Transcript

ENSXFYT00000058495

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P14381	Transposon TX1 uncharacterized 149 kDa protein OS=Xenopus laevis OX=8355 PE=4 SV=1
P11369	LINE-1 retrotransposable element ORF2 protein OS=Mus musculus OX=10090 GN=Pol PE=1 SV=2
P08548	LINE-1 reverse transcriptase homolog OS=Nycticebus coucang OX=9470 PE=4 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000043 (this species only) · gene tree & orthology
Ubiquitin family	DUB\|USP\|USP · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00443 all species →	UCH	Ubiquitin carboxyl-terminal hydrolase	Family	Interproscan
PF00078 all species →	RVT_1	Reverse transcriptase (RNA-dependent DNA polymerase)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR038765 all species →	Homologous_superfamily	Papain-like cysteine peptidase superfamily	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR001394 all species →	Domain	Peptidase C19, ubiquitin carboxyl-terminal hydrolase	Interproscan
IPR018200 all species →	Conserved_site	Ubiquitin specific protease, conserved site	Interproscan
IPR028889 all species →	Domain	Ubiquitin specific protease domain	Interproscan
IPR000477 all species →	Domain	Reverse transcriptase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31635 all species →	REVERSE TRANSCRIPTASE DOMAIN-CONTAINING PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004843 all species →	Molecular Function	cysteine-type deubiquitinase activity	Interproscan
GO:0016579 all species →	Biological Process	protein deubiquitination	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 ENSXFYP00000052265.1.

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 Duncanopsammia axifuga 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 Duncanopsammia axifuga, 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 →