Gene detail

Detailed information of g37.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: WP_219775801.1, UDP-N-acetylglucosamine 1-carboxyvinyltransferase [Polymorphobacter sp. PAMC 29334]
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
Q5FSM2	UDP-N-acetylglucosamine 1-carboxyvinyltransferase OS=Gluconobacter oxydans (strain 621H) OX=290633 GN=murA PE=3 SV=1
A5V4L0	UDP-N-acetylglucosamine 1-carboxyvinyltransferase OS=Rhizorhabdus wittichii (strain DSM 6014 / CCUG 31198 / JCM 15750 / NBRC 105917 / EY 4224 / RW1) OX=392499 GN=murA PE=3 SV=1
A9HFN0	UDP-N-acetylglucosamine 1-carboxyvinyltransferase OS=Gluconacetobacter diazotrophicus (strain ATCC 49037 / DSM 5601 / CCUG 37298 / CIP 103539 / LMG 7603 / PAl5) OX=272568 GN=murA PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000092 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000217 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000229 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000949 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002806 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003300 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003630 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005420 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005754 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0010444 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0011766 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0033315 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00275 all species →	EPSP_synthase	EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)	Family	Interproscan
PF00852 all species →	Glyco_transf_10	Glycosyltransferase family 10 (fucosyltransferase) C-term	Family	Interproscan
PF17039 all species →	Glyco_tran_10_N	Fucosyltransferase, N-terminal	Domain	Interproscan
PF02148 all species →	zf-UBP	Zn-finger in ubiquitin-hydrolases and other protein	Domain	Interproscan
PF00443 all species →	UCH	Ubiquitin carboxyl-terminal hydrolase	Family	Interproscan
PF00996 all species →	GDI	GDP dissociation inhibitor	Family	Interproscan
PF21245 all species →	PI4KB-PIK1_PIK	PI4KB/PIK1, accessory (PIK) domain	Repeat	Interproscan
PF00929 all species →	RNase_T	Exonuclease	Family	Interproscan
PF01139 all species →	RtcB	tRNA-splicing ligase RtcB	Family	Interproscan
PF13359 all species →	DDE_Tnp_4	DDE superfamily endonuclease	Domain	Interproscan
PF10545 all species →	MADF_DNA_bdg	Alcohol dehydrogenase transcription factor Myb/SANT-like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036968 all species →	Homologous_superfamily	Enolpyruvate transferase domain superfamily	Interproscan
IPR001986 all species →	Domain	Enolpyruvate transferase domain	Interproscan
IPR005750 all species →	Family	UDP-N-acetylglucosamine 1-carboxyvinyltransferase	Interproscan
IPR050068 all species →	Family	UDP-N-acetylglucosamine 1-carboxyvinyltransferase MurA subfamily	Interproscan
IPR013792 all species →	Homologous_superfamily	RNA 3'-terminal phosphate cyclase/enolpyruvate transferase, alpha/beta	Interproscan
IPR001503 all species →	Family	Glycosyl transferase family 10	Interproscan
IPR038577 all species →	Homologous_superfamily	GT10-like, C-terminal domain superfamily	Interproscan
IPR031481 all species →	Domain	Fucosyltransferase, N-terminal	Interproscan
IPR001607 all species →	Domain	Zinc finger, UBP-type	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR001394 all species →	Domain	Peptidase C19, ubiquitin carboxyl-terminal hydrolase	Interproscan
IPR038765 all species →	Homologous_superfamily	Papain-like cysteine peptidase superfamily	Interproscan
IPR028889 all species →	Domain	Ubiquitin specific protease domain	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR000806 all species →	Family	Rab GDI protein	Interproscan
IPR018203 all species →	Family	GDP dissociation inhibitor	Interproscan
IPR042236 all species →	Homologous_superfamily	Phosphoinositide 3-kinase, accessory (PIK) domain superfamily	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR001263 all species →	Domain	Phosphoinositide 3-kinase, accessory (PIK) domain	Interproscan
IPR049160 all species →	Domain	PI4KB/PIK1, accessory domain	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR013520 all species →	Domain	Exonuclease, RNase T/DNA polymerase III	Interproscan
IPR022894 all species →	Family	Oligoribonuclease	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR001233 all species →	Family	RNA-splicing ligase, RtcB	Interproscan
IPR036025 all species →	Homologous_superfamily	tRNA-splicing ligase RtcB-like superfamily	Interproscan
IPR027513 all species →	Family	RNA-splicing ligase RtcB homologue, eukaryotic	Interproscan
IPR027806 all species →	Domain	Harbinger transposase-derived nuclease domain	Interproscan
IPR006578 all species →	Domain	MADF domain	Interproscan
IPR004210 all species →	Domain	BESS motif	Interproscan
IPR039353 all species →	Family	Transcription factor Adf-1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43783 all species →	UDP-N-ACETYLGLUCOSAMINE 1-CARBOXYVINYLTRANSFERASE	Interproscan
PTHR11929 all species →	ALPHA- 1,3 -FUCOSYLTRANSFERASE	Interproscan
PTHR11787 all species →	RAB GDP-DISSOCIATION INHIBITOR	Interproscan
PTHR34239 all species →	APPLE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR11046 all species →	OLIGORIBONUCLEASE, MITOCHONDRIAL	Interproscan
PTHR11118 all species →	UNCHARACTERIZED	Interproscan
PTHR22930 all species →	UNCHARACTERIZED	Interproscan
PTHR12243 all species →	MADF DOMAIN TRANSCRIPTION FACTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016765 all species →	Molecular Function	transferase activity, transferring alkyl or aryl (other than methyl) groups	Interproscan
GO:0008760 all species →	Molecular Function	UDP-N-acetylglucosamine 1-carboxyvinyltransferase activity	Interproscan
GO:0019277 all species →	Biological Process	UDP-N-acetylgalactosamine biosynthetic process	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0006486 all species →	Biological Process	protein glycosylation	Interproscan
GO:0008417 all species →	Molecular Function	fucosyltransferase activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0036065 all species →	Biological Process	fucosylation	Interproscan
GO:0046920 all species →	Molecular Function	alpha-(1->3)-fucosyltransferase activity	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0004843 all species →	Molecular Function	cysteine-type deubiquitinase activity	Interproscan
GO:0016579 all species →	Biological Process	protein deubiquitination	Interproscan
GO:0005093 all species →	Molecular Function	Rab GDP-dissociation inhibitor activity	Interproscan
GO:0015031 all species →	Biological Process	protein transport	Interproscan
GO:0005092 all species →	Molecular Function	GDP-dissociation inhibitor activity	Interproscan
GO:0007264 all species →	Biological Process	small GTPase-mediated signal transduction	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0016192 all species →	Biological Process	vesicle-mediated transport	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0000175 all species →	Molecular Function	3'-5'-RNA exonuclease activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0008452 all species →	Molecular Function	RNA ligase activity	Interproscan
GO:0000971 all species →	Biological Process	obsolete tRNA exon ligation utilizing 2',3' cyclic phosphate of 5'-exon as source of linkage phosphate	Interproscan
GO:0003972 all species →	Molecular Function	RNA ligase (ATP) activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0072669 all species →	Cellular Component	tRNA-splicing ligase complex	Interproscan
GO:0006388 all species →	Biological Process	tRNA splicing, via endonucleolytic cleavage and ligation	Interproscan
GO:0003677 all species →	Molecular Function	DNA 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
K00790	murA; UDP-N-acetylglucosamine 1-carboxyvinyltransferase	EC:2.5.1.7	Peptidoglycan biosynthesis and degradation proteins	ko01011	deepkoala
K13288	orn, REX2, REXO2; oligoribonuclease	EC:3.1.-.-	Ribosome biogenesis	ko03009	deepkoala
K14415	RTCB, rtcB; tRNA-splicing ligase RtcB (3'-phosphate/5'-hydroxy nucleic acid ligase)	EC:6.5.1.8	Transfer RNA biogenesis	ko03016	deepkoala
K17255	GDI1_2; Rab GDP dissociation inhibitor	-	Exosome	ko04147	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 →