Gene detail

Detailed information of g70.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: MBU2510913.1, flagellar hook-associated protein FlgK [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
P96501	Flagellar hook-associated protein 3 OS=Bacillus subtilis (strain 168) OX=224308 GN=flgL PE=3 SV=1
F2K079	4-hydroxybenzoate brominase (decarboxylating) OS=Marinomonas mediterranea (strain ATCC 700492 / JCM 21426 / NBRC 103028 / MMB-1) OX=717774 GN=bmp5 PE=1 SV=1
A0A2I2F2K8	Monooxygenase cfoE OS=Aspergillus candidus OX=41067 GN=cfoE PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000773 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000858 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001068 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001220 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002439 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003166 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0006223 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0008737 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0024775 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0024779 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0061887 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13234 all species →	MTR4_beta-barrel	Mtr4-like, beta-barrel domain	Domain	Interproscan
PF00270 all species →	DEAD	DEAD/DEAH box helicase	Domain	Interproscan
PF21408 all species →	MTR4-like_stalk	Exosome RNA helicase MTR4-like, stalk	Domain	Interproscan
PF17911 all species →	Ski2_N	Ski2 N-terminal region	Domain	Interproscan
PF08148 all species →	DSHCT	DSHCT (NUC185) domain	Domain	Interproscan
PF00271 all species →	Helicase_C	Helicase conserved C-terminal domain	Domain	Interproscan
PF03178 all species →	CPSF_A	CPSF A subunit region	Repeat	Interproscan
PF02179 all species →	BAG	BAG domain	Family	Interproscan
PF00069 all species →	Pkinase	Protein kinase domain	Domain	Interproscan
PF12796 all species →	Ank_2	Ankyrin repeats (3 copies)	Repeat	Interproscan
PF00669 all species →	Flagellin_N	Bacterial flagellin N-terminal helical region	Family	Interproscan
PF00700 all species →	Flagellin_C	Bacterial flagellin C-terminal helical region	Family	Interproscan
PF00743 all species →	FMO-like	Flavin-binding monooxygenase-like	Family	Interproscan
PF03370 all species →	CBM_21	Carbohydrate/starch-binding module (family 21)	Domain	Interproscan
PF16046 all species →	FAM76	FAM76 protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR050699 all species →	Family	RNA/DNA Helicase	Interproscan
IPR001650 all species →	Domain	Helicase, C-terminal domain-like	Interproscan
IPR014001 all species →	Domain	Helicase superfamily 1/2, ATP-binding domain	Interproscan
IPR025696 all species →	Domain	Exosome RNA helicase MTR4-like, beta-barrel domain	Interproscan
IPR011545 all species →	Domain	DEAD/DEAH box helicase domain	Interproscan
IPR048392 all species →	Domain	Exosome RNA helicase MTR4-like, stalk	Interproscan
IPR016438 all species →	Family	ATP-dependent RNA helicase SKI2-like	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR040801 all species →	Domain	Ski2, N-terminal domain	Interproscan
IPR012961 all species →	Domain	ATP-dependent RNA helicase Ski2/MTR4, C-terminal	Interproscan
IPR043128 all species →	Homologous_superfamily	Reverse transcriptase/Diguanylate cyclase domain	Interproscan
IPR050951 all species →	Family	Retrovirus-related Pol polyprotein	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR050358 all species →	Family	RSE1/DDB1/CFT1/CPSF1	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR004871 all species →	Domain	Cleavage/polyadenylation specificity factor, A subunit, C-terminal	Interproscan
IPR036533 all species →	Homologous_superfamily	BAG domain superfamily	Interproscan
IPR003103 all species →	Domain	BAG domain	Interproscan
IPR000719 all species →	Domain	Protein kinase domain	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan
IPR017441 all species →	Binding_site	Protein kinase, ATP binding site	Interproscan
IPR050285 all species →	Family	STE20 Serine/Threonine-Protein Kinase	Interproscan
IPR036770 all species →	Homologous_superfamily	Ankyrin repeat-containing domain superfamily	Interproscan
IPR002110 all species →	Repeat	Ankyrin repeat	Interproscan
IPR002371 all species →	Family	Flagellar hook-associated protein 1	Interproscan
IPR001029 all species →	Domain	Flagellin, N-terminal domain	Interproscan
IPR046358 all species →	Domain	Flagellin, C-terminal domain	Interproscan
IPR020946 all species →	Family	Flavin monooxygenase-like	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR000960 all species →	Family	Flavin monooxygenase FMO	Interproscan
IPR050346 all species →	Family	Flavin-containing Monooxygenases	Interproscan
IPR038175 all species →	Homologous_superfamily	CBM21 domain superfamily	Interproscan
IPR050782 all species →	Family	Protein phosphatase 1 regulatory subunit 3	Interproscan
IPR005036 all species →	Domain	CBM21 (carbohydrate binding type-21) domain	Interproscan
IPR032017 all species →	Family	FAM76 protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12131 all species →	ATP-DEPENDENT RNA AND DNA HELICASE	Interproscan
PTHR37984 all species →	PROTEIN CBG26694	Interproscan
PTHR10644 all species →	DNA REPAIR/RNA PROCESSING CPSF FAMILY	Interproscan
PTHR48015 all species →	SERINE/THREONINE-PROTEIN KINASE TAO	Interproscan
PTHR24203 all species →	ANKYRIN REPEAT FAMILY PROTEIN	Interproscan
PTHR30033 all species →	FLAGELLAR HOOK-ASSOCIATED PROTEIN 1	Interproscan
PTHR23023 all species →	DIMETHYLANILINE MONOOXYGENASE	Interproscan
PTHR12307 all species →	PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT	Interproscan
PTHR46176 all species →	LD21662P	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003724 all species →	Molecular Function	RNA helicase activity	Interproscan
GO:0006401 all species →	Biological Process	RNA catabolic process	Interproscan
GO:0055087 all species →	Cellular Component	Ski complex	Interproscan
GO:0070478 all species →	Biological Process	nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005847 all species →	Cellular Component	mRNA cleavage and polyadenylation specificity factor complex	Interproscan
GO:0006378 all species →	Biological Process	obsolete mRNA polyadenylation	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0051087 all species →	Molecular Function	protein-folding chaperone binding	Interproscan
GO:0004672 all species →	Molecular Function	protein kinase activity	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0004674 all species →	Molecular Function	protein serine/threonine kinase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0023014 all species →	Biological Process	signal transduction	Interproscan
GO:0035556 all species →	Biological Process	intracellular signal transduction	Interproscan
GO:0043408 all species →	Biological Process	regulation of MAPK cascade	Interproscan
GO:0005198 all species →	Molecular Function	structural molecule activity	Interproscan
GO:0009424 all species →	Cellular Component	bacterial-type flagellum hook	Interproscan
GO:0044780 all species →	Biological Process	bacterial-type flagellum assembly	Interproscan
GO:0004499 all species →	Molecular Function	N,N-dimethylaniline monooxygenase activity	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	Interproscan
GO:0050661 all species →	Molecular Function	NADP binding	Interproscan
GO:0000164 all species →	Cellular Component	protein phosphatase type 1 complex	Interproscan
GO:0005979 all species →	Biological Process	regulation of glycogen biosynthetic process	Interproscan
GO:0008157 all species →	Molecular Function	protein phosphatase 1 binding	Interproscan
GO:2001069 all species →	Molecular Function	glycogen binding	Interproscan
GO:0016607 all species →	Cellular Component	nuclear speck	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
K00485	FMO; dimethylaniline monooxygenase (N-oxide forming) / hypotaurine monooxygenase	EC:1.14.13.8 EC:1.8.1.-	Drug metabolism - cytochrome P450	ko00982	deepkoala
K04412	STK3, MST2; serine/threonine kinase 3	-	Protein kinases	ko01001	deepkoala
K07189	PPP1R3; protein phosphatase 1 regulatory subunit 3A/B/C/D/E	-	Protein phosphatases and associated proteins	ko01009	deepkoala
K12599	SKI2, SKIV2L; antiviral helicase SKI2	EC:5.6.2.6	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 →