Gene detail

Detailed information of g945.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: XP_046355039.1, josephin-2-like [Haliotis rufescens]
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
Q15040	Josephin-1 OS=Homo sapiens OX=9606 GN=JOSD1 PE=1 SV=1
Q5R739	Josephin-1 OS=Pongo abelii OX=9601 GN=JOSD1 PE=2 SV=1
Q9DBJ6	Josephin-1 OS=Mus musculus OX=10090 GN=Josd1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000001 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000012 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000039 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000055 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000061 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000092 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000107 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000307 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000574 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008117 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008343 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008354 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0026280 (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\|CDC20 · 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
PF00147 all species →	Fibrinogen_C	Fibrinogen beta and gamma chains, C-terminal globular domain	Domain	Interproscan
PF01400 all species →	Astacin	Astacin (Peptidase family M12A)	Domain	Interproscan
PF04281 all species →	Tom22	Mitochondrial import receptor subunit Tom22	Family	Interproscan
PF17921 all species →	Integrase_H2C2	Integrase zinc binding domain	Domain	Interproscan
PF02099 all species →	Josephin	Josephin	Family	Interproscan
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan
PF02668 all species →	TauD	Taurine catabolism dioxygenase TauD, TfdA family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR050382 all species →	Family	Major Facilitator Superfamily Sodium/Anion Cotransporter	Interproscan
IPR036259 all species →	Homologous_superfamily	MFS transporter superfamily	Interproscan
IPR002181 all species →	Domain	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Interproscan
IPR050373 all species →	Family	Fibrinogen C-terminal domain-containing protein	Interproscan
IPR036056 all species →	Homologous_superfamily	Fibrinogen-like, C-terminal	Interproscan
IPR014716 all species →	Homologous_superfamily	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Interproscan
IPR034035 all species →	Domain	Astacin-like metallopeptidase domain	Interproscan
IPR001506 all species →	Domain	Peptidase M12A	Interproscan
IPR006026 all species →	Domain	Peptidase, metallopeptidase	Interproscan
IPR043159 all species →	Homologous_superfamily	D-galactoside/L-rhamnose binding SUEL lectin domain superfamily	Interproscan
IPR024079 all species →	Homologous_superfamily	Metallopeptidase, catalytic domain superfamily	Interproscan
IPR038765 all species →	Homologous_superfamily	Papain-like cysteine peptidase superfamily	Interproscan
IPR005683 all species →	Family	Mitochondrial import receptor subunit Tom22	Interproscan
IPR001584 all species →	Domain	Integrase, catalytic core	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR050951 all species →	Family	Retrovirus-related Pol polyprotein	Interproscan
IPR041588 all species →	Domain	Integrase zinc-binding domain	Interproscan
IPR040053 all species →	Family	Josephin-1/2	Interproscan
IPR006155 all species →	Domain	Josephin domain	Interproscan
IPR011047 all species →	Homologous_superfamily	Quinoprotein alcohol dehydrogenase-like superfamily	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR052234 all species →	Family	U5 snRNP Complex Component	Interproscan
IPR042098 all species →	Homologous_superfamily	Taurine dioxygenase TauD-like superfamily	Interproscan
IPR003819 all species →	Domain	TauD/TfdA-like domain	Interproscan
IPR050411 all species →	Family	Alpha-ketoglutarate-dependent hydroxylases	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11662 all species →	SOLUTE CARRIER FAMILY 17	Interproscan
PTHR19143 all species →	FIBRINOGEN/TENASCIN/ANGIOPOEITIN	Interproscan
PTHR10127 all species →	DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING	Interproscan
PTHR12504 all species →	MITOCHONDRIAL IMPORT RECEPTOR SUBUNIT TOM22	Interproscan
PTHR37984 all species →	PROTEIN CBG26694	Interproscan
PTHR13291 all species →	JOSEPHIN 1, 2	Interproscan
PTHR44006 all species →	U5 SMALL NUCLEAR RIBONUCLEOPROTEIN 40 KDA PROTEIN	Interproscan
PTHR34239 all species →	APPLE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR10696 all species →	GAMMA-BUTYROBETAINE HYDROXYLASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006820 all species →	Biological Process	monoatomic anion transport	Interproscan
GO:0016021 all species →	Cellular Component	membrane	Interproscan
GO:0022857 all species →	Molecular Function	transmembrane transporter activity	Interproscan
GO:0004222 all species →	Molecular Function	metalloendopeptidase activity	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0008237 all species →	Molecular Function	metallopeptidase activity	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0005741 all species →	Cellular Component	mitochondrial outer membrane	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0015074 all species →	Biological Process	DNA integration	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0004843 all species →	Molecular Function	cysteine-type deubiquitinase activity	Interproscan
GO:0016579 all species →	Biological Process	protein deubiquitination	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0071013 all species →	Cellular Component	catalytic step 2 spliceosome	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase 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
K12301	SLC17A5; MFS transporter, ACS family, solute carrier family 17 (sodium-dependent inorganic phosphate cotransporter), member 5	-	Transporters	ko02000	deepkoala
K17769	TOM22; mitochondrial import receptor subunit TOM22	-	Transporters	ko02000	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 →