Gene detail

Detailed information of g600.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: XP_026690494.1, cyclin-J [Ciona intestinalis]
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
P21328	RNA-directed DNA polymerase from mobile element jockey OS=Drosophila melanogaster OX=7227 GN=pol PE=1 SV=1
P21329	RNA-directed DNA polymerase from mobile element jockey OS=Drosophila funebris OX=7221 GN=jockeypol PE=1 SV=1
Q9UHY1	Nuclear receptor-binding protein OS=Homo sapiens OX=9606 GN=NRBP1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000000 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000005 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000018 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000042 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000073 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000304 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001328 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002755 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002808 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003662 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005260 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008391 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0012295 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0061760 (this species only) · gene tree & orthology
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E1\|ThiF\|ThiF · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00899 all species →	ThiF	ThiF family	Domain	Interproscan
PF07727 all species →	RVT_2	Reverse transcriptase (RNA-dependent DNA polymerase)	Family	Interproscan
PF05380 all species →	Peptidase_A17	Pao retrotransposon peptidase	Family	Interproscan
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan
PF06726 all species →	BC10	Bladder cancer-related protein BC10	Family	Interproscan
PF12752 all species →	SUZ	SUZ domain	Domain	Interproscan
PF03372 all species →	Exo_endo_phos	Endonuclease/Exonuclease/phosphatase family	Domain	Interproscan
PF00078 all species →	RVT_1	Reverse transcriptase (RNA-dependent DNA polymerase)	Domain	Interproscan
PF02984 all species →	Cyclin_C	Cyclin, C-terminal domain	Domain	Interproscan
PF00134 all species →	Cyclin_N	Cyclin, N-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR023318 all species →	Homologous_superfamily	Ubiquitin activating enzyme, alpha domain superfamily	Interproscan
IPR035985 all species →	Homologous_superfamily	Ubiquitin-activating enzyme	Interproscan
IPR000594 all species →	Domain	THIF-type NAD/FAD binding fold	Interproscan
IPR045886 all species →	Family	ThiF/MoeB/HesA family	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR013103 all species →	Domain	Reverse transcriptase, RNA-dependent DNA polymerase	Interproscan
IPR008042 all species →	Family	Retrotransposon, Pao	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR013087 all species →	Domain	Zinc finger C2H2-type	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR042622 all species →	Family	Zinc finger protein 106	Interproscan
IPR009598 all species →	Family	Bladder cancer-related BC10	Interproscan
IPR024771 all species →	Domain	SUZ domain	Interproscan
IPR036691 all species →	Homologous_superfamily	Endonuclease/exonuclease/phosphatase superfamily	Interproscan
IPR005135 all species →	Domain	Endonuclease/exonuclease/phosphatase	Interproscan
IPR000477 all species →	Domain	Reverse transcriptase domain	Interproscan
IPR004367 all species →	Domain	Cyclin, C-terminal domain	Interproscan
IPR046965 all species →	Family	Cyclin A/B-like	Interproscan
IPR013763 all species →	Domain	Cyclin-like domain	Interproscan
IPR036915 all species →	Homologous_superfamily	Cyclin-like superfamily	Interproscan
IPR039361 all species →	Family	Cyclin	Interproscan
IPR048258 all species →	Conserved_site	Cyclins, cyclin-box	Interproscan
IPR006671 all species →	Domain	Cyclin, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10953 all species →	UBIQUITIN-ACTIVATING ENZYME E1	Interproscan
PTHR42648 all species →	TRANSPOSASE, PUTATIVE-RELATED	Interproscan
PTHR22955 all species →	RETROTRANSPOSON	Interproscan
PTHR14435 all species →	ZINC FINGER PROTEIN 106	Interproscan
PTHR19446 all species →	REVERSE TRANSCRIPTASES	Interproscan
PTHR10177 all species →	CYCLINS	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008641 all species →	Molecular Function	ubiquitin-like modifier activating enzyme activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0016925 all species →	Biological Process	protein sumoylation	Interproscan
GO:0019948 all species →	Molecular Function	SUMO activating enzyme activity	Interproscan
GO:0031510 all species →	Cellular Component	SUMO activating enzyme complex	Interproscan
GO:0032446 all species →	Biological Process	protein modification by small protein conjugation	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0017124 all species →	Molecular Function	SH3 domain binding	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0016538 all species →	Molecular Function	cyclin-dependent protein serine/threonine kinase regulator activity	Interproscan
GO:0044772 all species →	Biological Process	mitotic cell cycle phase transition	Interproscan
GO:0000079 all species →	Biological Process	regulation of cyclin-dependent protein serine/threonine kinase activity	Interproscan
GO:0000307 all species →	Cellular Component	cyclin-dependent protein kinase holoenzyme complex	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	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
K18757	LARP1; la-related protein 1	-	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 →