Gene detail

Detailed information of g49.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: WP_018997412.1, methionine adenosyltransferase [Hirschia maritima]
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
A7HZ88	S-adenosylmethionine synthase OS=Parvibaculum lavamentivorans (strain DS-1 / DSM 13023 / NCIMB 13966) OX=402881 GN=metK PE=3 SV=1
Q2VYQ2	S-adenosylmethionine synthase OS=Paramagnetospirillum magneticum (strain ATCC 700264 / AMB-1) OX=342108 GN=metK PE=3 SV=1
Q13AQ6	S-adenosylmethionine synthase OS=Rhodopseudomonas palustris (strain BisB5) OX=316057 GN=metK PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000000 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000047 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000056 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0000366 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001077 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0001681 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0003398 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005099 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0011911 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0024446 (this species only) · gene tree & orthology
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|BTB · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00651 all species →	BTB	BTB/POZ domain	Domain	Interproscan
PF07707 all species →	BACK	BTB And C-terminal Kelch	Domain	Interproscan
PF01344 all species →	Kelch_1	Kelch motif	Repeat	Interproscan
PF00078 all species →	RVT_1	Reverse transcriptase (RNA-dependent DNA polymerase)	Domain	Interproscan
PF02772 all species →	S-AdoMet_synt_M	S-adenosylmethionine synthetase, central domain	Domain	Interproscan
PF02773 all species →	S-AdoMet_synt_C	S-adenosylmethionine synthetase, C-terminal domain	Domain	Interproscan
PF18701 all species →	DUF5641	Family of unknown function (DUF5641)	Domain	Interproscan
PF13843 all species →	DDE_Tnp_1_7	Transposase IS4	Domain	Interproscan
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan
PF16043 all species →	DUF4795	Domain of unknown function (DUF4795)	Family	Interproscan
PF02140 all species →	Gal_Lectin	Galactose binding lectin domain	Domain	Interproscan
PF17292 all species →	POB3_N	POB3-like N-terminal PH domain	Domain	Interproscan
PF21103 all species →	PH1_SSRP1-like	SSRP1 PH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000210 all species →	Domain	BTB/POZ domain	Interproscan
IPR015915 all species →	Homologous_superfamily	Kelch-type beta propeller	Interproscan
IPR000477 all species →	Domain	Reverse transcriptase domain	Interproscan
IPR011333 all species →	Homologous_superfamily	SKP1/BTB/POZ domain superfamily	Interproscan
IPR011705 all species →	Domain	BTB/Kelch-associated	Interproscan
IPR006652 all species →	Repeat	Kelch repeat type 1	Interproscan
IPR002133 all species →	Family	S-adenosylmethionine synthetase	Interproscan
IPR022631 all species →	Conserved_site	S-adenosylmethionine synthetase, conserved site	Interproscan
IPR022629 all species →	Domain	S-adenosylmethionine synthetase, central domain	Interproscan
IPR022636 all species →	Homologous_superfamily	S-adenosylmethionine synthetase superfamily	Interproscan
IPR022630 all species →	Domain	S-adenosylmethionine synthetase, C-terminal	Interproscan
IPR040676 all species →	Domain	Domain of unknown function DUF5641	Interproscan
IPR029526 all species →	Domain	PiggyBac transposable element-derived protein	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR053053 all species →	Family	WD repeat-containing protein	Interproscan
IPR032013 all species →	Domain	Domain of unknown function DUF4795	Interproscan
IPR000922 all species →	Domain	D-galactoside/L-rhamnose binding SUEL lectin domain	Interproscan
IPR043159 all species →	Homologous_superfamily	D-galactoside/L-rhamnose binding SUEL lectin domain superfamily	Interproscan
IPR000969 all species →	Family	FACT complex subunit SSRP1/POB3	Interproscan
IPR050454 all species →	Family	RTT106/SSRP1 Histone Chaperone/FACT Complex	Interproscan
IPR035417 all species →	Domain	FACT complex subunit SSRP1/POB3, N-terminal PH domain	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR048993 all species →	Domain	FACT complex subunit SSRP1-like, first PH domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24412 all species →	KELCH PROTEIN	Interproscan
PTHR11964 all species →	S-ADENOSYLMETHIONINE SYNTHETASE	Interproscan
PTHR46599 all species →	PIGGYBAC TRANSPOSABLE ELEMENT-DERIVED PROTEIN 4	Interproscan
PTHR47027 all species →	REVERSE TRANSCRIPTASE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR44566 all species →	TRANSDUCIN/WD40 REPEAT-LIKE SUPERFAMILY PROTEIN	Interproscan
PTHR22955 all species →	RETROTRANSPOSON	Interproscan
PTHR47080 all species →	CHROMOSOME 16 OPEN READING FRAME 96	Interproscan
PTHR46780 all species →	PROTEIN EVA-1	Interproscan
PTHR45849 all species →	FACT COMPLEX SUBUNIT SSRP1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0004478 all species →	Molecular Function	methionine adenosyltransferase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006556 all species →	Biological Process	S-adenosylmethionine biosynthetic process	Interproscan
GO:0030246 all species →	Molecular Function	carbohydrate binding	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0031491 all species →	Molecular Function	nucleosome binding	Interproscan
GO:0035101 all species →	Cellular Component	FACT complex	Interproscan
GO:0042393 all species →	Molecular Function	histone binding	Interproscan
GO:1902275 all species →	Biological Process	regulation of chromatin organization	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
K00789	metK, MAT; S-adenosylmethionine synthetase	EC:2.5.1.6	Biosynthesis of various plant secondary metabolites	ko00999	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 →