Gene detail

Detailed information of g734.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: CAH3122679.1, unnamed protein product [Pocillopora meandrina]
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
O35245	Polycystin-2 OS=Mus musculus OX=10090 GN=Pkd2 PE=1 SV=2
Q13563	Polycystin-2 OS=Homo sapiens OX=9606 GN=PKD2 PE=1 SV=3
Q4GZT3	Polycystin-2 OS=Bos taurus OX=9913 GN=PKD2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000022 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000433 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001712 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002537 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004322 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004381 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005309 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008402 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0009363 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0011945 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0030293 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0033308 (this species only) · gene tree & orthology
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08159 all species →	NUC153	NUC153 domain	Domain	Interproscan
PF00520 all species →	Ion_trans	Ion transport protein	Family	Interproscan
PF12796 all species →	Ank_2	Ankyrin repeats (3 copies)	Repeat	Interproscan
PF06839 all species →	zf-GRF	GRF zinc finger	Domain	Interproscan
PF08265 all species →	YL1_C	YL1 nuclear protein C-terminal domain	Domain	Interproscan
PF05764 all species →	YL1	YL1 nuclear protein	Family	Interproscan
PF07719 all species →	TPR_2	Tetratricopeptide repeat	Repeat	Interproscan
PF00149 all species →	Metallophos	Calcineurin-like phosphoesterase	Domain	Interproscan
PF08321 all species →	PPP5	PPP5 TPR repeat region	Repeat	Interproscan
PF13181 all species →	TPR_8	Tetratricopeptide repeat	Repeat	Interproscan
PF00078 all species →	RVT_1	Reverse transcriptase (RNA-dependent DNA polymerase)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR040382 all species →	Family	Nucleolar protein 10/Enp2	Interproscan
IPR012580 all species →	Domain	NUC153	Interproscan
IPR011047 all species →	Homologous_superfamily	Quinoprotein alcohol dehydrogenase-like superfamily	Interproscan
IPR005821 all species →	Domain	Ion transport domain	Interproscan
IPR002110 all species →	Repeat	Ankyrin repeat	Interproscan
IPR024862 all species →	Family	Transient receptor potential cation channel subfamily V	Interproscan
IPR036770 all species →	Homologous_superfamily	Ankyrin repeat-containing domain superfamily	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR047887 all species →	Domain	ARHGAP20, PH domain	Interproscan
IPR039846 all species →	Family	Zinc finger CCHC domain-containing protein 4	Interproscan
IPR010666 all species →	Domain	Zinc finger, GRF-type	Interproscan
IPR013272 all species →	Domain	Vps72/YL1, C-terminal	Interproscan
IPR046757 all species →	Domain	Vps72/YL1, N-terminal	Interproscan
IPR008895 all species →	Family	Vps72/YL1 family	Interproscan
IPR029052 all species →	Homologous_superfamily	Metallo-dependent phosphatase-like	Interproscan
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR013105 all species →	Repeat	Tetratricopeptide repeat 2	Interproscan
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR004843 all species →	Domain	Calcineurin-like phosphoesterase domain, ApaH type	Interproscan
IPR006186 all species →	Domain	Serine/threonine-specific protein phosphatase/bis(5-nucleosyl)-tetraphosphatase	Interproscan
IPR013235 all species →	Domain	PPP domain	Interproscan
IPR051134 all species →	Family	Protein Phosphatase PPP	Interproscan
IPR000477 all species →	Domain	Reverse transcriptase domain	Interproscan
IPR043128 all species →	Homologous_superfamily	Reverse transcriptase/Diguanylate cyclase domain	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR050951 all species →	Family	Retrovirus-related Pol polyprotein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14927 all species →	UNCHARACTERIZED	Interproscan
PTHR10582 all species →	TRANSIENT RECEPTOR POTENTIAL ION CHANNEL PROTEIN	Interproscan
PTHR23179 all species →	T-CELL ACTIVATION RHO GTPASE ACTIVATING PROTEIN-RELATED	Interproscan
PTHR13493 all species →	ZINC FINGER CCHC DOMAIN-CONTAINING	Interproscan
PTHR13275 all species →	YL-1 PROTEIN TRANSCRIPTION FACTOR-LIKE 1	Interproscan
PTHR45668 all species →	SERINE/THREONINE-PROTEIN PHOSPHATASE 5-RELATED	Interproscan
PTHR37984 all species →	PROTEIN CBG26694	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000462 all species →	Biological Process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0030686 all species →	Cellular Component	90S preribosome	Interproscan
GO:0032040 all species →	Cellular Component	small-subunit processome	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005216 all species →	Molecular Function	monoatomic ion channel activity	Interproscan
GO:0006811 all species →	Biological Process	monoatomic ion transport	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	Interproscan
GO:0005262 all species →	Molecular Function	calcium channel activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0098703 all species →	Biological Process	calcium ion import across plasma membrane	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0008988 all species →	Molecular Function	rRNA (adenine-N6-)-methyltransferase activity	Interproscan
GO:0031167 all species →	Biological Process	rRNA methylation	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0043486 all species →	Biological Process	obsolete histone exchange	Interproscan
GO:0045815 all species →	Biological Process	transcription initiation-coupled chromatin remodeling	Interproscan
GO:0140849 all species →	Molecular Function	ATP-dependent H2AZ histone chaperone activity	Interproscan
GO:0016787 all species →	Molecular Function	hydrolase 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
K11664	VPS72, TCFL1, YL1; vacuolar protein sorting-associated protein 72	-	Chromosome and associated proteins	ko03036	deepkoala
K14788	NOL10, ENP2; ribosome biogenesis protein ENP2	-	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 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 →