Gene detail

Detailed information of g182.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: XP_028400742.1, peptidyl-tRNA hydrolase 2, mitochondrial-like [Dendronephthya gigantea]
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
Q3ZBL5	Peptidyl-tRNA hydrolase 2, mitochondrial OS=Bos taurus OX=9913 GN=PTRH2 PE=2 SV=1
Q8R2Y8	Peptidyl-tRNA hydrolase 2, mitochondrial OS=Mus musculus OX=10090 GN=Ptrh2 PE=1 SV=1
Q9Y3E5	Peptidyl-tRNA hydrolase 2, mitochondrial OS=Homo sapiens OX=9606 GN=PTRH2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000061 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000101 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000222 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000357 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001964 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003528 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003831 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004028 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0007295 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008139 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0010630 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0015023 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0016120 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00168 all species →	C2	C2 domain	Domain	Interproscan
PF00294 all species →	PfkB	pfkB family carbohydrate kinase	Domain	Interproscan
PF01926 all species →	MMR_HSR1	50S ribosome-binding GTPase	Family	Interproscan
PF08142 all species →	AARP2CN	AARP2CN (NUC121) domain	Domain	Interproscan
PF04950 all species →	RIBIOP_C	40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal	Family	Interproscan
PF01392 all species →	Fz	Fz domain	Domain	Interproscan
PF01534 all species →	Frizzled	Frizzled/Smoothened family membrane region	Family	Interproscan
PF01981 all species →	PTH2	Peptidyl-tRNA hydrolase PTH2	Family	Interproscan
PF05781 all species →	MRVI1	MRVI1 protein	Family	Interproscan
PF19745 all species →	FUT8_N_cat	Alpha-(1,6)-fucosyltransferase N- and catalytic domains	Domain	Interproscan
PF00067 all species →	p450	Cytochrome P450	Domain	Interproscan
PF03031 all species →	NIF	NLI interacting factor-like phosphatase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036716 all species →	Homologous_superfamily	Pesticidal crystal protein, N-terminal domain superfamily	Interproscan
IPR035892 all species →	Homologous_superfamily	C2 domain superfamily	Interproscan
IPR000008 all species →	Domain	C2 domain	Interproscan
IPR001565 all species →	Domain	Synaptotagmin	Interproscan
IPR029056 all species →	Homologous_superfamily	Ribokinase-like	Interproscan
IPR001805 all species →	Family	Adenosine kinase	Interproscan
IPR011611 all species →	Domain	Carbohydrate kinase PfkB	Interproscan
IPR006073 all species →	Domain	GTP binding domain	Interproscan
IPR007034 all species →	Domain	Ribosome biogenesis protein BMS1/TSR1, C-terminal	Interproscan
IPR039761 all species →	Family	Ribosome biogenesis protein Bms1/Tsr1	Interproscan
IPR030387 all species →	Domain	Bms1/Tsr1-type G domain	Interproscan
IPR012948 all species →	Domain	AARP2CN	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR037875 all species →	Domain	Ribosome biogenesis protein Bms1, N-terminal	Interproscan
IPR015526 all species →	Family	Frizzled/secreted frizzled-related protein	Interproscan
IPR036790 all species →	Homologous_superfamily	Frizzled cysteine-rich domain superfamily	Interproscan
IPR017981 all species →	Domain	GPCR, family 2-like, 7TM	Interproscan
IPR000539 all species →	Domain	Frizzled/Smoothened, 7TM	Interproscan
IPR020067 all species →	Domain	Frizzled domain	Interproscan
IPR023476 all species →	Homologous_superfamily	Peptidyl-tRNA hydrolase II domain superfamily	Interproscan
IPR002833 all species →	Family	Peptidyl-tRNA hydrolase, PTH2	Interproscan
IPR008677 all species →	Family	MRVI1	Interproscan
IPR027350 all species →	Domain	Glycosyltransferase family 23 (GT23) domain	Interproscan
IPR045573 all species →	Domain	Alpha-(1,6)-fucosyltransferase, N- and catalytic domain	Interproscan
IPR001128 all species →	Family	Cytochrome P450	Interproscan
IPR008066 all species →	Family	Cytochrome P450, E-class, group I, CYP1	Interproscan
IPR017972 all species →	Conserved_site	Cytochrome P450, conserved site	Interproscan
IPR036396 all species →	Homologous_superfamily	Cytochrome P450 superfamily	Interproscan
IPR002401 all species →	Family	Cytochrome P450, E-class, group I	Interproscan
IPR023214 all species →	Homologous_superfamily	HAD superfamily	Interproscan
IPR050365 all species →	Family	Mitochondrial import inner membrane translocase subunit TIM50	Interproscan
IPR004274 all species →	Domain	FCP1 homology domain	Interproscan
IPR036412 all species →	Homologous_superfamily	HAD-like superfamily	Interproscan
IPR011948 all species →	Domain	Dullard phosphatase domain, eukaryotic	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10024 all species →	SYNAPTOTAGMIN	Interproscan
PTHR45769 all species →	ADENOSINE KINASE	Interproscan
PTHR12858 all species →	RIBOSOME BIOGENESIS PROTEIN	Interproscan
PTHR11309 all species →	FRIZZLED	Interproscan
PTHR12649 all species →	PEPTIDYL-TRNA HYDROLASE 2	Interproscan
PTHR15352 all species →	LYMPHOID-RESTRICTED MEMBRANE PROTEIN, JAW1	Interproscan
PTHR33244 all species →	INTEGRASE CATALYTIC DOMAIN-CONTAINING PROTEIN-RELATED	Interproscan
PTHR13132 all species →	ALPHA- 1,6 -FUCOSYLTRANSFERASE	Interproscan
PTHR24289 all species →	STEROID 17-ALPHA-HYDROXYLASE/17,20 LYASE	Interproscan
PTHR12210 all species →	DULLARD PROTEIN PHOSPHATASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0090729 all species →	Molecular Function	toxin activity	Interproscan
GO:0000149 all species →	Molecular Function	SNARE binding	Interproscan
GO:0001786 all species →	Molecular Function	phosphatidylserine binding	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005544 all species →	Molecular Function	calcium-dependent phospholipid binding	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0014059 all species →	Biological Process	regulation of dopamine secretion	Interproscan
GO:0017156 all species →	Biological Process	calcium-ion regulated exocytosis	Interproscan
GO:0017158 all species →	Biological Process	regulation of calcium ion-dependent exocytosis	Interproscan
GO:0019905 all species →	Molecular Function	syntaxin binding	Interproscan
GO:0030276 all species →	Molecular Function	clathrin binding	Interproscan
GO:0048488 all species →	Biological Process	synaptic vesicle endocytosis	Interproscan
GO:0048791 all species →	Biological Process	calcium ion-regulated exocytosis of neurotransmitter	Interproscan
GO:0070382 all species →	Cellular Component	exocytic vesicle	Interproscan
GO:0071277 all species →	Biological Process	cellular response to calcium ion	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0004001 all species →	Molecular Function	adenosine kinase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006144 all species →	Biological Process	purine nucleobase metabolic process	Interproscan
GO:0006166 all species →	Biological Process	purine ribonucleoside salvage	Interproscan
GO:0005525 all species →	Molecular Function	GTP 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:0000479 all species →	Biological Process	endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	Interproscan
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0030686 all species →	Cellular Component	90S preribosome	Interproscan
GO:0034511 all species →	Molecular Function	U3 snoRNA binding	Interproscan
GO:0042254 all species →	Biological Process	ribosome biogenesis	Interproscan
GO:0016021 all species →	Cellular Component	membrane	Interproscan
GO:0017147 all species →	Molecular Function	Wnt-protein binding	Interproscan
GO:0035567 all species →	Biological Process	non-canonical Wnt signaling pathway	Interproscan
GO:0042813 all species →	Molecular Function	Wnt receptor activity	Interproscan
GO:0060070 all species →	Biological Process	canonical Wnt signaling pathway	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0004888 all species →	Molecular Function	transmembrane signaling receptor activity	Interproscan
GO:0007166 all species →	Biological Process	cell surface receptor signaling pathway	Interproscan
GO:0004045 all species →	Molecular Function	aminoacyl-tRNA hydrolase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006487 all species →	Biological Process	protein N-linked glycosylation	Interproscan
GO:0036071 all species →	Biological Process	N-glycan fucosylation	Interproscan
GO:0046921 all species →	Molecular Function	alpha-(1->6)-fucosyltransferase activity	Interproscan
GO:0004497 all species →	Molecular Function	monooxygenase activity	Interproscan
GO:0005506 all species →	Molecular Function	iron ion binding	Interproscan
GO:0016705 all species →	Molecular Function	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen	Interproscan
GO:0020037 all species →	Molecular Function	heme binding	Interproscan
GO:0016712 all species →	Molecular Function	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen	Interproscan
GO:0004508 all species →	Molecular Function	steroid 17-alpha-monooxygenase activity	Interproscan
GO:0042446 all species →	Biological Process	hormone biosynthetic process	Interproscan
GO:0042448 all species →	Biological Process	progesterone metabolic process	Interproscan
GO:0047442 all species →	Molecular Function	obsolete 17-alpha-hydroxyprogesterone aldolase activity	Interproscan
GO:0004721 all species →	Molecular Function	phosphoprotein phosphatase activity	Interproscan
GO:0016791 all species →	Molecular Function	phosphatase 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
K14569	BMS1; ribosome biogenesis protein BMS1	-	Ribosome biogenesis	ko03009	deepkoala
K17617	CTDNEP1, DULLARD, NEM1; CTD nuclear envelope phosphatase 1	EC:3.1.3.16	Protein phosphatases and associated proteins	ko01009	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 →