Gene detail

Detailed information of CAB3999052.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB3999052.1, alanine--tRNA ligase, cytoplasmic [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB3999052.1 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
P21894	Alanine--tRNA ligase, cytoplasmic OS=Bombyx mori OX=7091 PE=1 SV=1
Q8BGQ7	Alanine--tRNA ligase, cytoplasmic OS=Mus musculus OX=10090 GN=Aars1 PE=1 SV=1
Q9VLM8	Alanine--tRNA ligase, cytoplasmic OS=Drosophila melanogaster OX=7227 GN=AlaRS PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002669 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01411 all species →	tRNA-synt_2c	tRNA synthetases class II (A)	Family	Interproscan
PF07973 all species →	tRNA_SAD	Threonyl and Alanyl tRNA synthetase second additional domain	Domain	Interproscan
PF02272 all species →	DHHA1	DHHA1 domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018164 all species →	Domain	Alanyl-tRNA synthetase, class IIc, N-terminal	Interproscan
IPR045864 all species →	Homologous_superfamily	Class II Aminoacyl-tRNA synthetase/Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL)	Interproscan
IPR018162 all species →	Homologous_superfamily	Alanine-tRNA ligase, class IIc, anti-codon-binding domain superfamily	Interproscan
IPR023033 all species →	Family	Alanine-tRNA ligase, eukaryota/bacteria	Interproscan
IPR012947 all species →	Domain	Threonyl/alanyl tRNA synthetase, SAD	Interproscan
IPR050058 all species →	Family	Alanine--tRNA ligase	Interproscan
IPR009000 all species →	Homologous_superfamily	Translation protein, beta-barrel domain superfamily	Interproscan
IPR018163 all species →	Homologous_superfamily	Threonyl/alanyl tRNA synthetase, class II-like, putative editing domain superfamily	Interproscan
IPR002318 all species →	Family	Alanine-tRNA ligase, class IIc	Interproscan
IPR018165 all species →	Domain	Alanyl-tRNA synthetase, class IIc, core domain	Interproscan
IPR003156 all species →	Domain	DHHA1 domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11777 all species →	ALANYL-TRNA SYNTHETASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000166 all species →	Molecular Function	nucleotide binding	Interproscan
GO:0004813 all species →	Molecular Function	alanine-tRNA ligase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006419 all species →	Biological Process	alanyl-tRNA aminoacylation	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0004812 all species →	Molecular Function	aminoacyl-tRNA ligase activity	Interproscan
GO:0043039 all species →	Biological Process	tRNA aminoacylation	Interproscan
GO:0002161 all species →	Molecular Function	aminoacyl-tRNA editing activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid 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
K01872	AARS, alaS; alanyl-tRNA synthetase	EC:6.1.1.7	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 CAB3999052.1 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

21TPM > 0

4Conditions

214.2Max TPM

105.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	6	128.73	154.84
apical branchlet · Temperature treatment at T0	6	6	130.87	207.09
apical branchlet · Temperature treatment at T25	5	5	51.83	80.21
apical branchlet · Control at T0	4	4	100.39	214.21

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	154.84
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	142.57
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	135.73
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	133.02
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	133.01
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	73.23
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	207.09
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	188.38
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	107.89
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	105.18
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	94.08
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	82.63
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	80.21
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	75.01
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	47.98
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	34.64
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	21.31
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	214.21
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	66.44
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	62.93
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	57.97

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.