Gene detail

Detailed information of CAB3987442.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB3987442.1, methionine--tRNA ligase, cytoplasmic-like [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB3987442.1 in PCLAV (the gene ID may belong to a different isoform naming scheme). Try the gene search.

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6PF21	Methionine--tRNA ligase, cytoplasmic OS=Xenopus laevis OX=8355 GN=mars1 PE=2 SV=1
P56192	Methionine--tRNA ligase, cytoplasmic OS=Homo sapiens OX=9606 GN=MARS1 PE=1 SV=2
Q2T9L8	Methionine--tRNA ligase, cytoplasmic OS=Bos taurus OX=9913 GN=MARS1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002161 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09334 all species →	tRNA-synt_1g	tRNA synthetases class I (M)	Family	Interproscan
PF19303 all species →	Anticodon_3	Anticodon binding domain of methionyl tRNA ligase	Domain	Interproscan
PF00458 all species →	WHEP-TRS	WHEP-TRS domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015413 all species →	Domain	Methionyl/Leucyl tRNA synthetase	Interproscan
IPR029038 all species →	Homologous_superfamily	Methionyl-tRNA synthetase, Zn-domain	Interproscan
IPR041872 all species →	Domain	Methionyl-tRNA synthetase, anticodon-binding domain	Interproscan
IPR014758 all species →	Family	Methionyl-tRNA synthetase	Interproscan
IPR009068 all species →	Homologous_superfamily	uS15/NS1, RNA-binding domain superfamily	Interproscan
IPR000738 all species →	Domain	WHEP-TRS domain	Interproscan
IPR033911 all species →	Domain	Methioninyl-tRNA synthetase core domain	Interproscan
IPR014729 all species →	Homologous_superfamily	Rossmann-like alpha/beta/alpha sandwich fold	Interproscan
IPR023458 all species →	Family	Methionine-tRNA ligase, type 1	Interproscan
IPR009080 all species →	Homologous_superfamily	Aminoacyl-tRNA synthetase, class Ia, anticodon-binding	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45765 all species →	METHIONINE--TRNA LIGASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000166 all species →	Molecular Function	nucleotide binding	Interproscan
GO:0004812 all species →	Molecular Function	aminoacyl-tRNA ligase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006418 all species →	Biological Process	tRNA aminoacylation for protein translation	Interproscan
GO:0004825 all species →	Molecular Function	methionine-tRNA ligase activity	Interproscan
GO:0006431 all species →	Biological Process	methionyl-tRNA aminoacylation	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0017101 all species →	Cellular Component	aminoacyl-tRNA synthetase multienzyme complex	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
K01874	MARS, metG; methionyl-tRNA synthetase	EC:6.1.1.10	Transfer RNA biogenesis	ko03016	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of CAB3987442.1 across 21 RNA-seq samples of Paramuricea clavata. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

21Samples

18TPM > 0

4Conditions

107.5Max TPM

41.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	6	57.84	102.06
apical branchlet · Temperature treatment at T0	6	5	45.65	107.52
apical branchlet · Temperature treatment at T25	5	4	14.54	39.50
apical branchlet · Control at T0	4	3	41.87	96.17

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	102.06
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	76.39
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	54.35
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	51.30
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	46.89
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	16.06
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	107.52
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	58.57
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	58.20
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	30.91
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	18.67
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	39.50
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	14.88
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	11.66
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	6.65
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	96.17
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	42.44
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	28.88
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00

Source: CnidoSite RNA-seq expression matrices (PCLAV_TPM, StringTie quantification over 21 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.