Gene detail

Detailed information of g58.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: CAH3183057.1, unnamed protein product [Porites evermanni]
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
P36080	Ribosomal RNA-processing protein 14 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=RRP14 PE=1 SV=1
Q5ZIH2	Vacuolar fusion protein MON1 homolog A OS=Gallus gallus OX=9031 GN=MON1A PE=2 SV=1
Q95KG9	Vacuolar fusion protein MON1 homolog A OS=Macaca fascicularis OX=9541 GN=MON1A PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000006 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000844 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000927 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001248 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004662 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0006193 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0007084 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008631 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008749 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008813 (this species only) · gene tree & orthology
Transcription factor family	bHLH · all TF in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01839 all species →	FG-GAP	FG-GAP repeat	Repeat	Interproscan
PF13517 all species →	FG-GAP_3	FG-GAP-like repeat	Repeat	Interproscan
PF00255 all species →	GSHPx	Glutathione peroxidase	Family	Interproscan
PF19038 all species →	Fuz_longin_3	Third Longin domain of FUZ, MON1 and HPS1	Domain	Interproscan
PF19036 all species →	Fuz_longin_1	First Longin domain of FUZ, MON1 and HPS1	Domain	Interproscan
PF00010 all species →	HLH	Helix-loop-helix DNA-binding domain	Domain	Interproscan
PF18307 all species →	Tfb2_C	Transcription factor Tfb2 (p52) C-terminal domain	Domain	Interproscan
PF03849 all species →	Tfb2	Transcription factor Tfb2	Family	Interproscan
PF04935 all species →	SURF6	Surfeit locus protein 6	Family	Interproscan
PF15459 all species →	RRP14	60S ribosome biogenesis protein Rrp14	Family	Interproscan
PF02140 all species →	Gal_Lectin	Galactose binding lectin domain	Domain	Interproscan
PF00225 all species →	Kinesin	Kinesin motor domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR028994 all species →	Homologous_superfamily	Integrin alpha, N-terminal	Interproscan
IPR013517 all species →	Repeat	FG-GAP repeat	Interproscan
IPR000889 all species →	Family	Glutathione peroxidase	Interproscan
IPR029760 all species →	Conserved_site	Glutathione peroxidase conserved site	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan
IPR004353 all species →	Family	Vacuolar fusion protein Mon1	Interproscan
IPR043970 all species →	Domain	FUZ/MON1/HPS1, third Longin domain	Interproscan
IPR043972 all species →	Domain	FUZ/MON1/HPS1, first Longin domain	Interproscan
IPR011598 all species →	Domain	Myc-type, basic helix-loop-helix (bHLH) domain	Interproscan
IPR036638 all species →	Homologous_superfamily	Helix-loop-helix DNA-binding domain superfamily	Interproscan
IPR050370 all species →	Family	Hairy and Enhancer of Split/HEY-related	Interproscan
IPR040662 all species →	Domain	Transcription factor Tfb2, C-terminal domain	Interproscan
IPR004598 all species →	Family	Transcription factor TFIIH subunit p52/Tfb2	Interproscan
IPR029190 all species →	Domain	Ribosomal RNA-processing protein 14/surfeit locus protein 6, C-terminal domain	Interproscan
IPR029188 all species →	Domain	Ribosomal RNA-processing protein 14, N-terminal	Interproscan
IPR007019 all species →	Family	Surfeit locus 6	Interproscan
IPR043159 all species →	Homologous_superfamily	D-galactoside/L-rhamnose binding SUEL lectin domain superfamily	Interproscan
IPR000922 all species →	Domain	D-galactoside/L-rhamnose binding SUEL lectin domain	Interproscan
IPR001752 all species →	Domain	Kinesin motor domain	Interproscan
IPR019821 all species →	Conserved_site	Kinesin motor domain, conserved site	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR036961 all species →	Homologous_superfamily	Kinesin motor domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46580 all species →	SENSOR KINASE-RELATED	Interproscan
PTHR11592 all species →	GLUTATHIONE PEROXIDASE	Interproscan
PTHR13027 all species →	SAND PROTEIN-RELATED	Interproscan
PTHR33332 all species →	REVERSE TRANSCRIPTASE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR10985 all species →	BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTOR, HES-RELATED	Interproscan
PTHR13152 all species →	TFIIH, POLYPEPTIDE 4	Interproscan
PTHR14369 all species →	SURFEIT LOCUS PROTEIN 6	Interproscan
PTHR46780 all species →	PROTEIN EVA-1	Interproscan
PTHR47117 all species →	STAR-RELATED LIPID TRANSFER PROTEIN 9	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004601 all species →	Molecular Function	peroxidase activity	Interproscan
GO:0006979 all species →	Biological Process	response to oxidative stress	Interproscan
GO:0004602 all species →	Molecular Function	glutathione peroxidase activity	Interproscan
GO:0006623 all species →	Biological Process	protein targeting to vacuole	Interproscan
GO:0035658 all species →	Cellular Component	Mon1-Ccz1 complex	Interproscan
GO:0016192 all species →	Biological Process	vesicle-mediated transport	Interproscan
GO:0046983 all species →	Molecular Function	protein dimerization activity	Interproscan
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0000439 all species →	Cellular Component	transcription factor TFIIH core complex	Interproscan
GO:0001671 all species →	Molecular Function	ATPase activator activity	Interproscan
GO:0006289 all species →	Biological Process	nucleotide-excision repair	Interproscan
GO:0003690 all species →	Molecular Function	double-stranded DNA binding	Interproscan
GO:0005675 all species →	Cellular Component	transcription factor TFIIH holo complex	Interproscan
GO:0070816 all species →	Biological Process	obsolete phosphorylation of RNA polymerase II C-terminal domain	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0042273 all species →	Biological Process	ribosomal large subunit biogenesis	Interproscan
GO:0042274 all species →	Biological Process	ribosomal small subunit biogenesis	Interproscan
GO:0030246 all species →	Molecular Function	carbohydrate binding	Interproscan
GO:0003777 all species →	Molecular Function	microtubule motor activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0007018 all species →	Biological Process	microtubule-based movement	Interproscan
GO:0008017 all species →	Molecular Function	microtubule binding	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
K00432	gpx, btuE, bsaA; glutathione peroxidase	EC:1.11.1.9	Pathways of neurodegeneration - multiple diseases	ko05022	deepkoala
K03144	TFIIH4, GTF2H4, TFB2; transcription initiation factor TFIIH subunit 4	-	DNA repair and recombination proteins	ko03400	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 →