Gene detail

Detailed information of OS493_039525-T1 in Lophelia pertusa

Genomic Location: scaffold_1229:12419...13372
NR annotation: KAJ7348209.1, hypothetical protein OS493_039525, partial [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
Q3SYZ4	Aspartate--tRNA ligase, cytoplasmic OS=Bos taurus OX=9913 GN=DARS1 PE=2 SV=1
P15178	Aspartate--tRNA ligase, cytoplasmic OS=Rattus norvegicus OX=10116 GN=Dars1 PE=1 SV=1
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

No Pfam domain signature was detected for OS493_039525-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	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:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0004815 all species →	Molecular Function	aspartate-tRNA ligase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	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_039525-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_039525-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

109TPM > 0

7Conditions

265.6Max TPM

100.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	101.84	131.95
polyp at pH7 6	18	18	150.82	265.62
coral polyp · control treatment	16	16	97.98	195.79
coral polyp · oil and dispersant treatment	16	16	90.26	213.47
coral polyp · oil treatment	16	15	83.48	192.81
coral polyp · dispersant treatment	16	16	88.71	174.59
Polyp	10	10	70.00	116.95

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	131.95
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	130.27
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	122.86
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	121.26
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	120.97
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	118.43
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	115.29
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	108.95
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	107.93
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	105.61
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	104.51
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	101.61
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	92.72
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	76.48
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	72.21
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.53
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	67.50
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.09
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	265.62
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	257.17
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	222.85
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	191.62
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	188.90
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	187.84
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	162.78
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	160.45
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	158.53
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	152.87
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	150.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	142.87
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	107.51
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	103.72
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	76.13
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.97
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.56
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.33
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	195.79
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	194.61
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	149.35
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	130.91
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	130.58
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	119.88
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	104.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	91.92
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	86.96
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	85.42
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.64
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.87
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.48
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.66
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.81
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.59
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	213.47
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	161.04
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	140.68
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	124.11
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	110.41
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	106.13
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	90.11
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.64
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.76
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.41
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.70
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.08
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.30
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.79
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.09
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.42
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	192.81
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	123.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	122.54
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	105.10
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	103.85
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	94.22
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	92.23
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	92.01
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.03
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	79.46
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.64
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.83
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.08
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.08
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.69
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	174.59
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	169.94
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	153.57
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	142.16
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	122.31
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	99.84
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	96.95
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	92.70
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	72.35
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.30
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.19
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.74
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.54
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.26
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.37
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	116.95
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	94.01
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	93.19
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	85.27
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	65.46
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	58.47
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	55.62
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	54.15
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	44.60
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	32.26

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.