Gene detail

Detailed information of OS493_016164-T1 in Lophelia pertusa

Genomic Location: scaffold_49:1440705...1441662
NR annotation: KAJ7391874.1, Aspartate--tRNA ligase, cytoplasmic [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P14868	Aspartate--tRNA ligase, cytoplasmic OS=Homo sapiens OX=9606 GN=DARS1 PE=1 SV=2
Q922B2	Aspartate--tRNA ligase, cytoplasmic OS=Mus musculus OX=10090 GN=Dars1 PE=1 SV=2
Q5R9I5	Aspartate--tRNA ligase, cytoplasmic OS=Pongo abelii OX=9601 GN=DARS1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005889 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00152 all species →	tRNA-synt_2	tRNA synthetases class II (D, K and N)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002312 all species →	Family	Aspartyl/Asparaginyl-tRNA synthetase, class IIb	Interproscan
IPR045864 all species →	Homologous_superfamily	Class II Aminoacyl-tRNA synthetase/Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL)	Interproscan
IPR006195 all species →	Domain	Aminoacyl-tRNA synthetase, class II	Interproscan
IPR004364 all species →	Domain	Aminoacyl-tRNA synthetase, class II (D/K/N)	Interproscan
IPR004523 all species →	Family	Aspartate-tRNA synthetase, type 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43450 all species →	ASPARTYL-TRNA SYNTHETASE	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:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0004815 all species →	Molecular Function	aspartate-tRNA ligase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006422 all species →	Biological Process	aspartyl-tRNA aminoacylation	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

No KEGG orthology assignment for OS493_016164-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_016164-T1 across 110 RNA-seq samples of Lophelia pertusa. 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.

110Samples

110TPM > 0

7Conditions

1,506.8Max TPM

498.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	456.64	540.33
polyp at pH7 6	18	18	739.80	1,506.79
coral polyp · control treatment	16	16	496.54	1,076.59
coral polyp · oil and dispersant treatment	16	16	424.05	685.90
coral polyp · oil treatment	16	16	429.42	714.11
coral polyp · dispersant treatment	16	16	430.45	1,218.83
Polyp	10	10	475.94	603.38

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	540.33
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	536.39
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	532.39
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	521.71
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	504.86
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	493.29
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	473.59
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	466.80
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	462.20
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	457.51
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	444.60
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	442.36
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	435.49
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	429.54
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	426.18
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	384.61
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	334.89
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	332.76
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,506.79
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,503.07
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,056.90
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,048.99
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	842.46
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	825.63
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	767.33
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	730.02
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	707.64
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	689.72
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	584.25
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	567.58
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	501.87
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	446.66
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	402.69
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	392.20
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	383.73
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	358.77
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,076.59
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	796.45
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	745.02
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	624.02
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	559.65
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	507.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	502.46
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	478.75
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	421.17
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	403.56
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	384.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	354.69
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	351.06
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	304.04
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	266.73
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	168.37
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	685.90
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	680.37
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	638.57
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	565.45
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	520.49
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	492.34
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	463.10
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	393.12
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	343.75
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	337.88
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	332.94
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	321.58
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	297.45
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	268.45
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	245.04
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	198.35
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	714.11
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	672.28
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	561.21
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	511.35
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	479.04
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	449.70
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	415.06
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	395.06
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	375.14
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	368.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	361.83
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	361.35
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	340.50
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	336.15
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	284.11
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	245.28
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,218.83
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	599.69
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	553.71
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	518.07
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	449.10
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	432.45
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	421.09
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	376.77
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	373.61
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	328.21
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	325.76
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	280.98
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	274.83
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	272.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	242.39
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	219.65
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	603.38
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	538.34
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	514.18
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	487.23
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	465.07
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	459.63
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	458.08
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	444.43
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	417.09
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	371.99

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 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.