Gene detail

Detailed information of g786.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: XP_047134717.1, cleavage and polyadenylation specificity factor subunit 6-like [Hydra vulgaris]
Species Calvadosia cruxmelitensis · all data for this species · gene families

Sequence

Sequence data are not available for Calvadosia cruxmelitensis.
Nucleotide and protein sequences are provided for the species whose genome annotation is complete (see annotated genomes); for this species only the assembly is archived. The functional annotation below is likewise unavailable.

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6NWC6	Cleavage and polyadenylation specificity factor subunit 6 OS=Danio rerio OX=7955 GN=cpsf6 PE=2 SV=1
Q9VSH4	Cleavage and polyadenylation specificity factor subunit 6 OS=Drosophila melanogaster OX=7227 GN=Cpsf6 PE=1 SV=2
Q5ZL34	Cleavage and polyadenylation specificity factor subunit 6 OS=Gallus gallus OX=9031 GN=CPSF6 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000329 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000402 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002042 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002494 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002675 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002797 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003166 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003353 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0036655 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0061773 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0062014 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00117 all species →	GATase	Glutamine amidotransferase class-I	Domain	Interproscan
PF07045 all species →	DUF1330	Domain of unknown function (DUF1330)	Domain	Interproscan
PF00076 all species →	RRM_1	RNA recognition motif	Domain	Interproscan
PF00743 all species →	FMO-like	Flavin-binding monooxygenase-like	Family	Interproscan
PF01663 all species →	Phosphodiest	Type I phosphodiesterase / nucleotide pyrophosphatase	Family	Interproscan
PF00435 all species →	Spectrin	Spectrin repeat	Domain	Interproscan
PF02535 all species →	Zip	ZIP Zinc transporter	Family	Interproscan
PF00167 all species →	FGF	Fibroblast growth factor	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017926 all species →	Domain	Glutamine amidotransferase	Interproscan
IPR011008 all species →	Homologous_superfamily	Dimeric alpha-beta barrel	Interproscan
IPR044992 all species →	Family	Glutamine amidotransferase domain containing protein ChyE-like	Interproscan
IPR029062 all species →	Homologous_superfamily	Class I glutamine amidotransferase-like	Interproscan
IPR010753 all species →	Domain	Domain of unknown function DUF1330	Interproscan
IPR009100 all species →	Homologous_superfamily	Acyl-CoA dehydrogenase/oxidase, N-terminal and middle domain superfamily	Interproscan
IPR036250 all species →	Homologous_superfamily	Acyl-CoA dehydrogenase-like, C-terminal	Interproscan
IPR046373 all species →	Homologous_superfamily	Acyl-CoA oxidase/dehydrogenase, middle domain superfamily	Interproscan
IPR012258 all species →	Family	Acyl-CoA oxidase	Interproscan
IPR035979 all species →	Homologous_superfamily	RNA-binding domain superfamily	Interproscan
IPR000504 all species →	Domain	RNA recognition motif domain	Interproscan
IPR034772 all species →	Family	CPSF6/7 family	Interproscan
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan
IPR050346 all species →	Family	Flavin-containing Monooxygenases	Interproscan
IPR020946 all species →	Family	Flavin monooxygenase-like	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR000960 all species →	Family	Flavin monooxygenase FMO	Interproscan
IPR018159 all species →	Repeat	Spectrin/alpha-actinin	Interproscan
IPR002591 all species →	Family	Type I phosphodiesterase/nucleotide pyrophosphatase/phosphate transferase	Interproscan
IPR002017 all species →	Repeat	Spectrin repeat	Interproscan
IPR017850 all species →	Homologous_superfamily	Alkaline-phosphatase-like, core domain superfamily	Interproscan
IPR003689 all species →	Family	Zinc/iron permease	Interproscan
IPR002209 all species →	Family	Fibroblast growth factor family	Interproscan
IPR008996 all species →	Homologous_superfamily	Cytokine IL1/FGF	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR42695 all species →	GLUTAMINE AMIDOTRANSFERASE YLR126C-RELATED	Interproscan
PTHR10909 all species →	ELECTRON TRANSPORT OXIDOREDUCTASE	Interproscan
PTHR23204 all species →	CLEAVAGE AND POLYADENYLATION SPECIFIC FACTOR	Interproscan
PTHR23023 all species →	DIMETHYLANILINE MONOOXYGENASE	Interproscan
PTHR10151 all species →	ECTONUCLEOTIDE PYROPHOSPHATASE/PHOSPHODIESTERASE	Interproscan
PTHR16950 all species →	ZINC TRANSPORTER SLC39A7 HISTIDINE-RICH MEMBRANE PROTEIN KE4	Interproscan
PTHR11486 all species →	FIBROBLAST GROWTH FACTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0016627 all species →	Molecular Function	oxidoreductase activity, acting on the CH-CH group of donors	Interproscan
GO:0003997 all species →	Molecular Function	acyl-CoA oxidase activity	Interproscan
GO:0005504 all species →	Molecular Function	fatty acid binding	Interproscan
GO:0005777 all species →	Cellular Component	peroxisome	Interproscan
GO:0006631 all species →	Biological Process	fatty acid metabolic process	Interproscan
GO:0016402 all species →	Molecular Function	pristanoyl-CoA oxidase activity	Interproscan
GO:0033540 all species →	Biological Process	fatty acid beta-oxidation using acyl-CoA oxidase	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	Interproscan
GO:0055088 all species →	Biological Process	lipid homeostasis	Interproscan
GO:0071949 all species →	Molecular Function	FAD binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0005847 all species →	Cellular Component	mRNA cleavage and polyadenylation specificity factor complex	Interproscan
GO:0098789 all species →	Biological Process	obsolete pre-mRNA cleavage required for polyadenylation	Interproscan
GO:0110104 all species →	Biological Process	mRNA alternative polyadenylation	Interproscan
GO:0004499 all species →	Molecular Function	N,N-dimethylaniline monooxygenase activity	Interproscan
GO:0050661 all species →	Molecular Function	NADP binding	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005385 all species →	Molecular Function	zinc ion transmembrane transporter activity	Interproscan
GO:0006882 all species →	Biological Process	intracellular zinc ion homeostasis	Interproscan
GO:0071577 all species →	Biological Process	zinc ion transmembrane transport	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0030001 all species →	Biological Process	metal ion transport	Interproscan
GO:0046873 all species →	Molecular Function	metal ion transmembrane transporter activity	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	Interproscan
GO:0008083 all species →	Molecular Function	growth factor 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
K00485	FMO; dimethylaniline monooxygenase (N-oxide forming) / hypotaurine monooxygenase	EC:1.14.13.8 EC:1.8.1.-	Drug metabolism - cytochrome P450	ko00982	deepkoala
K01951	guaA, GMPS; GMP synthase (glutamine-hydrolysing)	EC:6.3.5.2	Peptidases and inhibitors	ko01002	deepkoala
K14398	CPSF6_7; cleavage and polyadenylation specificity factor subunit 6/7	-	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 Calvadosia cruxmelitensis 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 Calvadosia cruxmelitensis, 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.	sequence table not available	–
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.	sequence table not available	–
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 →