Gene detail

Detailed information of g47.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: HBQ37044.1, NADH:ubiquinone reductase (Na(+)-transporting) subunit F [Paracoccaceae 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
A9M2A6	Na(+)-translocating NADH-quinone reductase subunit F OS=Neisseria meningitidis serogroup C (strain 053442) OX=374833 GN=nqrF PE=3 SV=1
Q9JVQ3	Na(+)-translocating NADH-quinone reductase subunit F OS=Neisseria meningitidis serogroup A / serotype 4A (strain DSM 15465 / Z2491) OX=122587 GN=nqrF PE=3 SV=1
A1KSH3	Na(+)-translocating NADH-quinone reductase subunit F OS=Neisseria meningitidis serogroup C / serotype 2a (strain ATCC 700532 / DSM 15464 / FAM18) OX=272831 GN=nqrF PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000000 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000093 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000702 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001476 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002169 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003926 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003952 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0006016 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008005 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008507 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0012601 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0018307 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0036096 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18800 all species →	Atthog	Attenuator of Hedgehog	Family	Interproscan
PF00566 all species →	RabGAP-TBC	Rab-GTPase-TBC domain	Family	Interproscan
PF02171 all species →	Piwi	Piwi domain	Family	Interproscan
PF04750 all species →	Far-17a_AIG1	FAR-17a/AIG1-like protein	Family	Interproscan
PF09340 all species →	NuA4	Histone acetyltransferase subunit NuA4	Family	Interproscan
PF00390 all species →	malic	Malic enzyme, N-terminal domain	Domain	Interproscan
PF03949 all species →	Malic_M	Malic enzyme, NAD binding domain	Domain	Interproscan
PF00093 all species →	VWC	von Willebrand factor type C domain	Domain	Interproscan
PF00100 all species →	Zona_pellucida	Zona pellucida-like domain	Family	Interproscan
PF13650 all species →	Asp_protease_2	Aspartyl protease	Domain	Interproscan
PF21055 all species →	ZSWIM4-8_C	ZSWIM4-8, C-terminal	Repeat	Interproscan
PF10277 all species →	Frag1	Frag1/DRAM/Sfk1 family	Family	Interproscan
PF00753 all species →	Lactamase_B	Metallo-beta-lactamase superfamily	Domain	Interproscan
PF07521 all species →	RMMBL	Zn-dependent metallo-hydrolase RNA specificity domain	Motif	Interproscan
PF17770 all species →	RNase_J_C	Ribonuclease J C-terminal domain	Domain	Interproscan
PF00111 all species →	Fer2	2Fe-2S iron-sulfur cluster binding domain	Domain	Interproscan
PF00175 all species →	NAD_binding_1	Oxidoreductase NAD-binding domain	Domain	Interproscan
PF00970 all species →	FAD_binding_6	Oxidoreductase FAD-binding domain	Domain	Interproscan
PF13855 all species →	LRR_8	Leucine rich repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037663 all species →	Family	Modulator of smoothened protein	Interproscan
IPR035969 all species →	Homologous_superfamily	Rab-GAP-TBC domain superfamily	Interproscan
IPR000195 all species →	Domain	Rab-GAP-TBC domain	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR003165 all species →	Domain	Piwi domain	Interproscan
IPR006838 all species →	Family	ADTRP/AIG1	Interproscan
IPR015418 all species →	Family	Chromatin modification-related protein Eaf6	Interproscan
IPR012302 all species →	Domain	Malic enzyme, NAD-binding	Interproscan
IPR001891 all species →	Family	Malic oxidoreductase	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR012301 all species →	Domain	Malic enzyme, N-terminal domain	Interproscan
IPR015884 all species →	Conserved_site	Malic enzyme, conserved site	Interproscan
IPR037062 all species →	Homologous_superfamily	Malic enzyme, N-terminal domain superfamily	Interproscan
IPR046346 all species →	Homologous_superfamily	Aminoacid dehydrogenase-like, N-terminal domain superfamily	Interproscan
IPR001007 all species →	Domain	VWFC domain	Interproscan
IPR001507 all species →	Domain	Zona pellucida domain	Interproscan
IPR042235 all species →	Homologous_superfamily	Zona pellucida, ZP-C domain	Interproscan
IPR001995 all species →	Domain	Peptidase A2A, retrovirus, catalytic	Interproscan
IPR001878 all species →	Domain	Zinc finger, CCHC-type	Interproscan
IPR036875 all species →	Homologous_superfamily	Zinc finger, CCHC-type superfamily	Interproscan
IPR048370 all species →	Domain	ZSWIM4-8, C-terminal	Interproscan
IPR050911 all species →	Family	DRAM/TMEM150 Autophagy Modulator	Interproscan
IPR019402 all species →	Family	Frag1/DRAM/Sfk1	Interproscan
IPR001279 all species →	Domain	Metallo-beta-lactamase	Interproscan
IPR001587 all species →	Conserved_site	Ribonuclease J, conserved site	Interproscan
IPR036866 all species →	Homologous_superfamily	Ribonuclease Z/Hydroxyacylglutathione hydrolase-like	Interproscan
IPR011108 all species →	Domain	Zn-dependent metallo-hydrolase, RNA specificity domain	Interproscan
IPR041636 all species →	Domain	Ribonuclease J, C-terminal	Interproscan
IPR042173 all species →	Homologous_superfamily	Ribonuclease J, domain 2	Interproscan
IPR004613 all species →	Family	Ribonuclease J	Interproscan
IPR001041 all species →	Domain	2Fe-2S ferredoxin-type iron-sulfur binding domain	Interproscan
IPR017938 all species →	Homologous_superfamily	Riboflavin synthase-like beta-barrel	Interproscan
IPR039261 all species →	Homologous_superfamily	Ferredoxin-NADP reductase (FNR), nucleotide-binding domain	Interproscan
IPR010205 all species →	Family	Na(+)-translocating NADH-quinone reductase subunit F	Interproscan
IPR017927 all species →	Domain	FAD-binding domain, ferredoxin reductase-type	Interproscan
IPR012675 all species →	Homologous_superfamily	Beta-grasp domain superfamily	Interproscan
IPR036010 all species →	Homologous_superfamily	2Fe-2S ferredoxin-like superfamily	Interproscan
IPR001433 all species →	Domain	Oxidoreductase FAD/NAD(P)-binding	Interproscan
IPR008333 all species →	Domain	Flavoprotein pyridine nucleotide cytochrome reductase-like, FAD-binding domain	Interproscan
IPR050216 all species →	Family	Leucine-rich repeat domain-containing protein	Interproscan
IPR032675 all species →	Homologous_superfamily	Leucine-rich repeat domain superfamily	Interproscan
IPR003591 all species →	Repeat	Leucine-rich repeat, typical subtype	Interproscan
IPR001611 all species →	Repeat	Leucine-rich repeat	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31186 all species →	MODULATOR OF SMOOTHENED PROTEIN	Interproscan
PTHR22891 all species →	EUKARYOTIC TRANSLATION INITIATION FACTOR 2C	Interproscan
PTHR10989 all species →	ANDROGEN-INDUCED PROTEIN 1-RELATED	Interproscan
PTHR13476 all species →	UNCHARACTERIZED	Interproscan
PTHR23406 all species →	MALIC ENZYME-RELATED	Interproscan
PTHR14002 all species →	ENDOGLIN/TGF-BETA RECEPTOR TYPE III	Interproscan
PTHR47331 all species →	PHD-TYPE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR22619 all species →	ZINC FINGER SWIM DOMAIN CONTAINING PROTEIN 4, 5, 6	Interproscan
PTHR21324 all species →	FASTING-INDUCIBLE INTEGRAL MEMBRANE PROTEIN TM6P1-RELATED	Interproscan
PTHR43694 all species →	RIBONUCLEASE J	Interproscan
PTHR43644 all species →	NA(+)-TRANSLOCATING NADH-QUINONE REDUCTASE SUBUNIT	Interproscan
PTHR48051 all species →	-	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
GO:0045879 all species →	Biological Process	negative regulation of smoothened signaling pathway	Interproscan
GO:0060170 all species →	Cellular Component	ciliary membrane	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0004521 all species →	Molecular Function	RNA endonuclease activity	Interproscan
GO:0031047 all species →	Biological Process	regulatory ncRNA-mediated gene silencing	Interproscan
GO:0034584 all species →	Molecular Function	piRNA binding	Interproscan
GO:0043186 all species →	Cellular Component	P granule	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0012505 all species →	Cellular Component	endomembrane system	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0000123 all species →	Cellular Component	histone acetyltransferase complex	Interproscan
GO:0035267 all species →	Cellular Component	NuA4 histone acetyltransferase complex	Interproscan
GO:0051287 all species →	Molecular Function	NAD binding	Interproscan
GO:0004470 all species →	Molecular Function	malic enzyme activity	Interproscan
GO:0016616 all species →	Molecular Function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	Interproscan
GO:0004473 all species →	Molecular Function	malate dehydrogenase (decarboxylating) (NADP+) activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006090 all species →	Biological Process	pyruvate metabolic process	Interproscan
GO:0006108 all species →	Biological Process	malate metabolic process	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005615 all species →	Cellular Component	extracellular space	Interproscan
GO:0009986 all species →	Cellular Component	cell surface	Interproscan
GO:0004190 all species →	Molecular Function	aspartic-type endopeptidase activity	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0031462 all species →	Cellular Component	Cul2-RING ubiquitin ligase complex	Interproscan
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0051536 all species →	Molecular Function	iron-sulfur cluster binding	Interproscan
GO:0006814 all species →	Biological Process	sodium ion transport	Interproscan
GO:0016655 all species →	Molecular Function	oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor	Interproscan
GO:0051537 all species →	Molecular Function	2 iron, 2 sulfur cluster binding	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
K00029	maeB; malate dehydrogenase (oxaloacetate-decarboxylating)(NADP+)	EC:1.1.1.40	PPAR signaling pathway	ko03320	deepkoala
K00351	nqrF; Na+-transporting NADH:ubiquinone oxidoreductase subunit F	EC:7.2.1.1	Enzymes with EC numbers	-	deepkoala
K02156	AUB, PIWI; aubergine	-	Chromosome and associated proteins	ko03036	deepkoala
K11344	MEAF6, EAF6; chromatin modification-related protein EAF6	-	Chromosome and associated proteins	ko03036	deepkoala
K12574	rnj; ribonuclease J	EC:3.1.-.-	Messenger RNA biogenesis	ko03019	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 →