Gene detail

Detailed information of g508.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: MCP4295988.1, leucine--tRNA ligase [Pseudomonadota bacterium]
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
B7GK53	Leucine--tRNA ligase OS=Anoxybacillus flavithermus (strain DSM 21510 / WK1) OX=491915 GN=leuS PE=3 SV=1
C5D6D7	Leucine--tRNA ligase OS=Geobacillus sp. (strain WCH70) OX=471223 GN=leuS PE=3 SV=1
Q5KW09	Leucine--tRNA ligase OS=Geobacillus kaustophilus (strain HTA426) OX=235909 GN=leuS PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000022 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000220 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001338 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003166 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004584 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005647 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005727 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005904 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0007754 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008330 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0012241 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14964 all species →	INTS15	Integrator complex subunit 15	Family	Interproscan
PF13374 all species →	TPR_10	Tetratricopeptide repeat	Repeat	Interproscan
PF12807 all species →	eIF3_p135	Translation initiation factor eIF3 subunit 135	Family	Interproscan
PF13424 all species →	TPR_12	Tetratricopeptide repeat	Repeat	Interproscan
PF13236 all species →	CLU	Clustered mitochondria	Domain	Interproscan
PF09334 all species →	tRNA-synt_1g	tRNA synthetases class I (M)	Family	Interproscan
PF00133 all species →	tRNA-synt_1	tRNA synthetases class I (I, L, M and V)	Domain	Interproscan
PF08264 all species →	Anticodon_1	Anticodon-binding domain of tRNA ligase	Domain	Interproscan
PF13603 all species →	tRNA-synt_1_2	Leucyl-tRNA synthetase, editing domain	Domain	Interproscan
PF01585 all species →	G-patch	G-patch domain	Family	Interproscan
PF17921 all species →	Integrase_H2C2	Integrase zinc binding domain	Domain	Interproscan
PF00227 all species →	Proteasome	Proteasome subunit	Domain	Interproscan
PF10584 all species →	Proteasome_A_N	Proteasome subunit A N-terminal signature	Family	Interproscan
PF14560 all species →	Ubiquitin_2	Ubiquitin-like domain	Domain	Interproscan
PF01302 all species →	CAP_GLY	CAP-Gly domain	Domain	Interproscan
PF00255 all species →	GSHPx	Glutathione peroxidase	Family	Interproscan
PF06951 all species →	PLA2G12	Group XII secretory phospholipase A2 precursor (PLA2G12)	Domain	Interproscan
PF03522 all species →	SLC12	Solute carrier family 12	Family	Interproscan
PF00324 all species →	AA_permease	Amino acid permease	Domain	Interproscan
PF08403 all species →	AA_permease_N	Amino acid permease N-terminal	Family	Interproscan
PF00743 all species →	FMO-like	Flavin-binding monooxygenase-like	Family	Interproscan
PF17919 all species →	RT_RNaseH_2	RNase H-like domain found in reverse transcriptase	Domain	Interproscan
PF00078 all species →	RVT_1	Reverse transcriptase (RNA-dependent DNA polymerase)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027844 all species →	Family	Integrator complex subunit 15	Interproscan
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR025697 all species →	Domain	CLU domain	Interproscan
IPR033646 all species →	Domain	CLU central domain	Interproscan
IPR027523 all species →	Family	CLU domain containing protein	Interproscan
IPR015413 all species →	Domain	Methionyl/Leucyl tRNA synthetase	Interproscan
IPR002300 all species →	Domain	Aminoacyl-tRNA synthetase, class Ia	Interproscan
IPR002302 all species →	Family	Leucine-tRNA ligase	Interproscan
IPR009008 all species →	Homologous_superfamily	Valyl/Leucyl/Isoleucyl-tRNA synthetase, editing domain	Interproscan
IPR013155 all species →	Domain	Methionyl/Valyl/Leucyl/Isoleucyl-tRNA synthetase, anticodon-binding	Interproscan
IPR009080 all species →	Homologous_superfamily	Aminoacyl-tRNA synthetase, class Ia, anticodon-binding	Interproscan
IPR014729 all species →	Homologous_superfamily	Rossmann-like alpha/beta/alpha sandwich fold	Interproscan
IPR025709 all species →	Domain	Leucyl-tRNA synthetase, editing domain	Interproscan
IPR039249 all species →	Family	G patch domain-containing protein 11	Interproscan
IPR000467 all species →	Domain	G-patch domain	Interproscan
IPR050951 all species →	Family	Retrovirus-related Pol polyprotein	Interproscan
IPR041588 all species →	Domain	Integrase zinc-binding domain	Interproscan
IPR000426 all species →	Domain	Proteasome alpha-subunit, N-terminal domain	Interproscan
IPR001353 all species →	Family	Proteasome, subunit alpha/beta	Interproscan
IPR029055 all species →	Homologous_superfamily	Nucleophile aminohydrolases, N-terminal	Interproscan
IPR050115 all species →	Family	Proteasome subunit alpha	Interproscan
IPR023332 all species →	Family	Proteasome alpha-type subunit	Interproscan
IPR045172 all species →	Domain	Tubulin-folding cofactor B, ubiquitin-like domain	Interproscan
IPR000938 all species →	Domain	CAP Gly-rich domain	Interproscan
IPR000626 all species →	Domain	Ubiquitin-like domain	Interproscan
IPR036859 all species →	Homologous_superfamily	CAP Gly-rich domain superfamily	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR036444 all species →	Homologous_superfamily	Phospholipase A2 domain superfamily	Interproscan
IPR010711 all species →	Family	Group XII secretory phospholipase A2 precursor	Interproscan
IPR000889 all species →	Family	Glutathione peroxidase	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan
IPR004842 all species →	Family	SLC12A transporter family	Interproscan
IPR018491 all species →	Domain	SLC12A transporter, C-terminal	Interproscan
IPR004841 all species →	Domain	Amino acid permease/ SLC12A domain	Interproscan
IPR013612 all species →	Domain	Amino acid permease, N-terminal	Interproscan
IPR050346 all species →	Family	Flavin-containing Monooxygenases	Interproscan
IPR000960 all species →	Family	Flavin monooxygenase FMO	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR020946 all species →	Family	Flavin monooxygenase-like	Interproscan
IPR041577 all species →	Domain	Reverse transcriptase/retrotransposon-derived protein, RNase H-like domain	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR000477 all species →	Domain	Reverse transcriptase domain	Interproscan
IPR043128 all species →	Homologous_superfamily	Reverse transcriptase/Diguanylate cyclase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14540 all species →	UNCHARACTERIZED	Interproscan
PTHR12601 all species →	EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT EIF-3	Interproscan
PTHR43740 all species →	LEUCYL-TRNA SYNTHETASE	Interproscan
PTHR21032 all species →	UNCHARACTERIZED	Interproscan
PTHR37984 all species →	PROTEIN CBG26694	Interproscan
PTHR11599 all species →	PROTEASOME SUBUNIT ALPHA/BETA	Interproscan
PTHR18916 all species →	DYNACTIN 1-RELATED MICROTUBULE-BINDING	Interproscan
PTHR12824 all species →	GROUP XII SECRETORY PHOSPHOLIPASE A2 FAMILY MEMBER	Interproscan
PTHR11827 all species →	SOLUTE CARRIER FAMILY 12, CATION COTRANSPORTERS	Interproscan
PTHR23023 all species →	DIMETHYLANILINE MONOOXYGENASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006996 all species →	Biological Process	organelle organization	Interproscan
GO:0048312 all species →	Biological Process	intracellular distribution of mitochondria	Interproscan
GO:0000166 all species →	Molecular Function	nucleotide binding	Interproscan
GO:0004812 all species →	Molecular Function	aminoacyl-tRNA ligase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006418 all species →	Biological Process	tRNA aminoacylation for protein translation	Interproscan
GO:0004823 all species →	Molecular Function	leucine-tRNA ligase activity	Interproscan
GO:0006429 all species →	Biological Process	leucyl-tRNA aminoacylation	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0002161 all species →	Molecular Function	aminoacyl-tRNA editing activity	Interproscan
GO:0000776 all species →	Cellular Component	kinetochore	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0006511 all species →	Biological Process	ubiquitin-dependent protein catabolic process	Interproscan
GO:0019773 all species →	Cellular Component	proteasome core complex, alpha-subunit complex	Interproscan
GO:0005839 all species →	Cellular Component	proteasome core complex	Interproscan
GO:0051603 all species →	Biological Process	proteolysis involved in protein catabolic process	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0010498 all species →	Biological Process	proteasomal protein catabolic process	Interproscan
GO:0007021 all species →	Biological Process	tubulin complex assembly	Interproscan
GO:0007023 all species →	Biological Process	post-chaperonin tubulin folding pathway	Interproscan
GO:0043014 all species →	Molecular Function	alpha-tubulin binding	Interproscan
GO:0031122 all species →	Biological Process	cytoplasmic microtubule organization	Interproscan
GO:0035371 all species →	Cellular Component	microtubule plus-end	Interproscan
GO:0051010 all species →	Molecular Function	microtubule plus-end binding	Interproscan
GO:0004623 all species →	Molecular Function	phospholipase A2 activity	Interproscan
GO:0006644 all species →	Biological Process	phospholipid metabolic process	Interproscan
GO:0050482 all species →	Biological Process	arachidonate secretion	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005576 all species →	Cellular Component	extracellular region	Interproscan
GO:0016042 all species →	Biological Process	lipid catabolic process	Interproscan
GO:0004601 all species →	Molecular Function	peroxidase activity	Interproscan
GO:0006979 all species →	Biological Process	response to oxidative stress	Interproscan
GO:0006811 all species →	Biological Process	monoatomic ion transport	Interproscan
GO:0006884 all species →	Biological Process	cell volume homeostasis	Interproscan
GO:0008511 all species →	Molecular Function	sodium:potassium:chloride symporter activity	Interproscan
GO:0015377 all species →	Molecular Function	chloride:monoatomic cation symporter activity	Interproscan
GO:0015379 all species →	Molecular Function	potassium:chloride symporter activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0035725 all species →	Biological Process	sodium ion transmembrane transport	Interproscan
GO:0055064 all species →	Biological Process	chloride ion homeostasis	Interproscan
GO:0055075 all species →	Biological Process	potassium ion homeostasis	Interproscan
GO:0055078 all species →	Biological Process	sodium ion homeostasis	Interproscan
GO:1902476 all species →	Biological Process	chloride transmembrane transport	Interproscan
GO:1990573 all species →	Biological Process	potassium ion import across plasma membrane	Interproscan
GO:0022857 all species →	Molecular Function	transmembrane transporter activity	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	Interproscan
GO:0050661 all species →	Molecular Function	NADP binding	Interproscan
GO:0004499 all species →	Molecular Function	N,N-dimethylaniline monooxygenase 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
K01869	LARS, leuS; leucyl-tRNA synthetase	EC:6.1.1.4	Mitochondrial biogenesis	ko03029	deepkoala
K02727	PSMA3; 20S proteasome subunit alpha 7	EC:3.4.25.1	Proteasome	ko03051	deepkoala
K10951	SLC12A2, NKCC1; solute carrier family 12 (sodium/potassium/chloride transporter), member 2	-	Transporters	ko02000	deepkoala
K17262	TBCB, CKAP1, ALF1; tubulin-specific chaperone B	-	Exosome	ko04147	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 →