Gene detail

Detailed information of g591.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: KAG1681437.1, Chimeric ERCC6-PGBD3 protein [Nymphon striatum]
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
Q9SIP0	Ras-related protein RABA5d OS=Arabidopsis thaliana OX=3702 GN=RABA5D PE=1 SV=1
P19892	Ras-related protein RABA5e OS=Arabidopsis thaliana OX=3702 GN=RABA5E PE=2 SV=1
P28187	Ras-related protein RABA5c OS=Arabidopsis thaliana OX=3702 GN=RABA5C PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000332 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001781 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002710 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003206 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004577 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0007192 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0010950 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0017768 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0042443 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00206 all species →	Lyase_1	Lyase	Domain	Interproscan
PF00812 all species →	Ephrin	Ephrin	Domain	Interproscan
PF18371 all species →	FAD_SOX	Flavin adenine dinucleotide (FAD)-dependent sulfhydryl oxidase	Domain	Interproscan
PF18108 all species →	QSOX_Trx1	QSOX Trx-like domain	Domain	Interproscan
PF04777 all species →	Evr1_Alr	Erv1 / Alr family	Family	Interproscan
PF00085 all species →	Thioredoxin	Thioredoxin	Domain	Interproscan
PF15275 all species →	PEHE	PEHE domain	Family	Interproscan
PF03385 all species →	STELLO	STELLO glycosyltransferases	Family	Interproscan
PF00071 all species →	Ras	Ras family	Domain	Interproscan
PF04500 all species →	FLYWCH	FLYWCH zinc finger domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR024083 all species →	Homologous_superfamily	Fumarase/histidase, N-terminal	Interproscan
IPR008948 all species →	Homologous_superfamily	L-Aspartase-like	Interproscan
IPR009049 all species →	Family	Argininosuccinate lyase	Interproscan
IPR022761 all species →	Domain	Fumarate lyase, N-terminal	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR008972 all species →	Homologous_superfamily	Cupredoxin	Interproscan
IPR001799 all species →	Domain	Ephrin receptor-binding domain	Interproscan
IPR031328 all species →	Family	Ephrin	Interproscan
IPR039798 all species →	Family	Sulfhydryl oxidase	Interproscan
IPR040986 all species →	Domain	Sulfhydryl oxidase, flavin adenine dinucleotide (FAD) binding domain	Interproscan
IPR041269 all species →	Domain	Sulfhydryl oxidase, Trx-like domain	Interproscan
IPR013766 all species →	Domain	Thioredoxin domain	Interproscan
IPR036774 all species →	Homologous_superfamily	ERV/ALR sulfhydryl oxidase domain superfamily	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan
IPR017905 all species →	Domain	ERV/ALR sulfhydryl oxidase domain	Interproscan
IPR017937 all species →	Conserved_site	Thioredoxin, conserved site	Interproscan
IPR042568 all species →	Homologous_superfamily	Sulfhydryl oxidase, flavin adenine dinucleotide (FAD) binding domain superfamily	Interproscan
IPR029332 all species →	Domain	PEHE domain	Interproscan
IPR026711 all species →	Family	Protein male-specific lethal-1	Interproscan
IPR005049 all species →	Family	STELLO-like	Interproscan
IPR050227 all species →	Family	Ras-related protein Rab	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR001806 all species →	Family	Small GTPase	Interproscan
IPR052887 all species →	Family	FLYWCH-type zinc finger-containing protein	Interproscan
IPR007588 all species →	Domain	Zinc finger, FLYWCH-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43814 all species →	ARGININOSUCCINATE LYASE	Interproscan
PTHR47501 all species →	TRANSPOSASE-RELATED	Interproscan
PTHR11304 all species →	EPHRIN	Interproscan
PTHR22897 all species →	QUIESCIN Q6-RELATED SULFHYDRYL OXIDASE	Interproscan
PTHR21656 all species →	MALE-SPECIFIC LETHAL-1 PROTEIN	Interproscan
PTHR31362 all species →	GLYCOSYLTRANSFERASE STELLO1-RELATED	Interproscan
PTHR47977 all species →	RAS-RELATED PROTEIN RAB	Interproscan
PTHR37975 all species →	FLYWCH ZINC FINGER TRANSCRIPTION FACTOR HOMOLOG	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0004056 all species →	Molecular Function	argininosuccinate lyase activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0042450 all species →	Biological Process	arginine biosynthetic process via ornithine	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007411 all species →	Biological Process	axon guidance	Interproscan
GO:0046875 all species →	Molecular Function	ephrin receptor binding	Interproscan
GO:0048013 all species →	Biological Process	ephrin receptor signaling pathway	Interproscan
GO:0003756 all species →	Molecular Function	protein disulfide isomerase activity	Interproscan
GO:0005615 all species →	Cellular Component	extracellular space	Interproscan
GO:0006457 all species →	Biological Process	protein folding	Interproscan
GO:0016971 all species →	Molecular Function	flavin-dependent sulfhydryl oxidase activity	Interproscan
GO:0030173 all species →	Cellular Component	obsolete integral component of Golgi membrane	Interproscan
GO:0016972 all species →	Molecular Function	thiol oxidase activity	Interproscan
GO:0003682 all species →	Molecular Function	chromatin binding	Interproscan
GO:0043984 all species →	Biological Process	obsolete histone H4-K16 acetylation	Interproscan
GO:0072487 all species →	Cellular Component	MSL complex	Interproscan
GO:0016192 all species →	Biological Process	vesicle-mediated transport	Interproscan
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0043565 all species →	Molecular Function	sequence-specific DNA binding	Interproscan
GO:0045892 all species →	Biological Process	negative regulation of DNA-templated transcription	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
K10758	QSOX; thiol oxidase	EC:1.8.3.2	Enzymes with EC numbers	-	deepkoala
K14592	FOLH1, GCPII; glutamate carboxypeptidase II (folate hydrolase 1)	EC:3.4.17.21	Peptidases and inhibitors	ko01002	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 →