Gene detail

Detailed information of g19.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: MBL8642505.1, homoserine O-acetyltransferase [Rhodospirillaceae 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
Q2RP84	Homoserine O-acetyltransferase OS=Rhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 467 / LMG 4362 / NCIMB 8255 / S1) OX=269796 GN=metXA PE=3 SV=1
Q89UL7	Homoserine O-acetyltransferase OS=Bradyrhizobium diazoefficiens (strain JCM 10833 / BCRC 13528 / IAM 13628 / NBRC 14792 / USDA 110) OX=224911 GN=metXA PE=3 SV=1
Q98G09	Homoserine O-acetyltransferase OS=Mesorhizobium japonicum (strain LMG 29417 / CECT 9101 / MAFF 303099) OX=266835 GN=metXA PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000000 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000199 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000515 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001582 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002167 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0004585 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0006278 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0011227 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0059535 (this species only) · gene tree & orthology
Transcription factor family	HMG · all TF in this species
Ubiquitin family	DUB\|USP\|USP · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
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
PF04666 all species →	Glyco_transf_54	N-Acetylglucosaminyltransferase-IV (GnT-IV) conserved region	Family	Interproscan
PF00069 all species →	Pkinase	Protein kinase domain	Domain	Interproscan
PF13650 all species →	Asp_protease_2	Aspartyl protease	Domain	Interproscan
PF03564 all species →	DUF1759	Protein of unknown function (DUF1759)	Family	Interproscan
PF05380 all species →	Peptidase_A17	Pao retrotransposon peptidase	Family	Interproscan
PF18701 all species →	DUF5641	Family of unknown function (DUF5641)	Domain	Interproscan
PF17921 all species →	Integrase_H2C2	Integrase zinc binding domain	Domain	Interproscan
PF00561 all species →	Abhydrolase_1	alpha/beta hydrolase fold	Domain	Interproscan
PF09011 all species →	HMG_box_2	HMG-box domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018200 all species →	Conserved_site	Ubiquitin specific protease, conserved site	Interproscan
IPR038765 all species →	Homologous_superfamily	Papain-like cysteine peptidase superfamily	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR001607 all species →	Domain	Zinc finger, UBP-type	Interproscan
IPR001394 all species →	Domain	Peptidase C19, ubiquitin carboxyl-terminal hydrolase	Interproscan
IPR028889 all species →	Domain	Ubiquitin specific protease domain	Interproscan
IPR006759 all species →	Family	Glycosyl transferase family 54	Interproscan
IPR008266 all species →	Active_site	Tyrosine-protein kinase, active site	Interproscan
IPR000719 all species →	Domain	Protein kinase domain	Interproscan
IPR051681 all species →	Family	Serine/Threonine Kinases and Pseudokinases	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan
IPR016197 all species →	Homologous_superfamily	Chromo-like domain superfamily	Interproscan
IPR001584 all species →	Domain	Integrase, catalytic core	Interproscan
IPR021109 all species →	Homologous_superfamily	Aspartic peptidase domain superfamily	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR005312 all species →	Family	Protein of unknown function DUF1759	Interproscan
IPR008042 all species →	Family	Retrotransposon, Pao	Interproscan
IPR040676 all species →	Domain	Domain of unknown function DUF5641	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR041588 all species →	Domain	Integrase zinc-binding domain	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR029058 all species →	Homologous_superfamily	Alpha/Beta hydrolase fold	Interproscan
IPR008220 all species →	Family	Homoserine/serine acetyltransferase MetX-like	Interproscan
IPR000073 all species →	Domain	Alpha/beta hydrolase fold-1	Interproscan
IPR009071 all species →	Domain	High mobility group box domain	Interproscan
IPR036910 all species →	Homologous_superfamily	High mobility group box domain superfamily	Interproscan
IPR031061 all species →	Family	High mobility group protein HMGB, plant	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24007 all species →	BRCA1-ASSOCIATED PROTEIN	Interproscan
PTHR12062 all species →	N-ACETYLGLUCOSAMINYLTRANSFERASE VI	Interproscan
PTHR44329 all species →	SERINE/THREONINE-PROTEIN KINASE TNNI3K-RELATED	Interproscan
PTHR22955 all species →	RETROTRANSPOSON	Interproscan
PTHR32268 all species →	HOMOSERINE O-ACETYLTRANSFERASE	Interproscan
PTHR46261 all species →	HIGH MOBILITY GROUP B PROTEIN 4-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004843 all species →	Molecular Function	cysteine-type deubiquitinase activity	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0016579 all species →	Biological Process	protein deubiquitination	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0007265 all species →	Biological Process	Ras protein signal transduction	Interproscan
GO:0016567 all species →	Biological Process	protein ubiquitination	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase activity	Interproscan
GO:0006487 all species →	Biological Process	protein N-linked glycosylation	Interproscan
GO:0008375 all species →	Molecular Function	acetylglucosaminyltransferase activity	Interproscan
GO:0004672 all species →	Molecular Function	protein kinase activity	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0004674 all species →	Molecular Function	protein serine/threonine kinase activity	Interproscan
GO:0015074 all species →	Biological Process	DNA integration	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0009058 all species →	Biological Process	biosynthetic process	Interproscan
GO:0016747 all species →	Molecular Function	acyltransferase activity, transferring groups other than amino-acyl groups	Interproscan
GO:0004414 all species →	Molecular Function	homoserine O-acetyltransferase activity	Interproscan
GO:0009086 all species →	Biological Process	methionine biosynthetic process	Interproscan
GO:0009092 all species →	Biological Process	homoserine metabolic process	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
K00641	metX; homoserine O-acetyltransferase/O-succinyltransferase	EC:2.3.1.31 EC:2.3.1.46	Cysteine and methionine metabolism	ko00270	deepkoala
K05670	ABCC13; ATP-binding cassette, subfamily C (CFTR/MRP), member 13	-	Transporters	ko02000	deepkoala
K16743	ASPM, ASP; abnormal spindle-like microcephaly-associated protein	-	Chromosome and associated proteins	ko03036	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 →