Gene detail

Detailed information of OS493_030711-T1 in Lophelia pertusa

Genomic Location: scaffold_201:336725...339137
NR annotation: KAJ7377116.1, hypothetical protein OS493_030711 [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
Q9P2J5	Leucine--tRNA ligase, cytoplasmic OS=Homo sapiens OX=9606 GN=LARS1 PE=1 SV=2
Q5R614	Leucine--tRNA ligase, cytoplasmic OS=Pongo abelii OX=9601 GN=LARS1 PE=2 SV=1
Q8BMJ2	Leucine--tRNA ligase, cytoplasmic OS=Mus musculus OX=10090 GN=Lars1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002117 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_030711-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR009008 all species →	Homologous_superfamily	Valyl/Leucyl/Isoleucyl-tRNA synthetase, editing domain	Interproscan
IPR004493 all species →	Family	Leucyl-tRNA synthetase, class Ia, archaeal/eukaryotic cytosolic	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45794 all species →	LEUCYL-TRNA SYNTHETASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0002161 all species →	Molecular Function	aminoacyl-tRNA editing activity	Interproscan
GO:0006418 all species →	Biological Process	tRNA aminoacylation for protein translation	Interproscan
GO:0000166 all species →	Molecular Function	nucleotide binding	Interproscan
GO:0004823 all species →	Molecular Function	leucine-tRNA ligase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006429 all species →	Biological Process	leucyl-tRNA aminoacylation	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_030711-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_030711-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

96TPM > 0

7Conditions

27.8Max TPM

8.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	14	4.50	16.30
polyp at pH7 6	18	13	3.95	10.29
coral polyp · control treatment	16	16	13.30	27.78
coral polyp · oil and dispersant treatment	16	15	12.16	24.48
coral polyp · oil treatment	16	16	8.15	17.25
coral polyp · dispersant treatment	16	15	14.00	24.68
Polyp	10	7	1.98	4.26

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.30
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.90
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.71
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.52
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.31
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.24
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.61
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.41
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.38
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.16
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.06
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.20
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.11
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.29
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.20
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.81
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.25
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.21
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.88
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.80
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.12
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.16
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.77
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.27
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.07
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.32
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.78
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.55
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.75
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.87
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.68
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.53
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.87
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.47
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.71
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.39
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.87
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.11
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.83
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.43
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.01
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.92
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.48
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.77
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.63
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.57
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.05
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.35
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.01
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.01
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.29
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.28
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.06
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.60
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.98
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.22
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.28
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.25
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.50
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.79
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.70
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.83
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.43
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.65
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.23
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.07
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.15
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.75
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.60
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.31
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.09
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.05
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.99
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.68
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.02
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.69
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.72
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.59
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.97
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.96
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.56
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.28
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.97
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.58
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.57
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.44
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.14
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.26
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.62
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.57
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.13
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.50
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.29
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.