Gene detail

Detailed information of OS493_033680-T1 in Lophelia pertusa

Genomic Location: scaffold_271:477914...480394
NR annotation: KAJ7389097.1, hypothetical protein OS493_033680 [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
O76387	Probable peptidyl-tRNA hydrolase 2 OS=Caenorhabditis elegans OX=6239 GN=C24G6.8 PE=3 SV=1
Q877G5	Peptidyl-tRNA hydrolase OS=Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770) OX=330779 GN=pth PE=3 SV=1
Q976I0	Peptidyl-tRNA hydrolase OS=Sulfurisphaera tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) OX=273063 GN=pth PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009317 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01981 all species →	PTH2	Peptidyl-tRNA hydrolase PTH2	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002833 all species →	Family	Peptidyl-tRNA hydrolase, PTH2	Interproscan
IPR023476 all species →	Homologous_superfamily	Peptidyl-tRNA hydrolase II domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12649 all species →	PEPTIDYL-TRNA HYDROLASE 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004045 all species →	Molecular Function	aminoacyl-tRNA hydrolase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	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
K04794	PTH2, PTRH2; peptidyl-tRNA hydrolase, PTH2 family	EC:3.1.1.29	Translation factors	ko03012	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_033680-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

61.0Max TPM

19.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.89	25.43
polyp at pH7 6	18	17	13.27	21.17
coral polyp · control treatment	16	16	27.89	53.19
coral polyp · oil and dispersant treatment	16	16	21.68	38.68
coral polyp · oil treatment	16	16	28.11	60.98
coral polyp · dispersant treatment	16	16	18.98	32.25
Polyp	10	10	16.33	34.93

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.43
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.04
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.38
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.70
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.28
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.62
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.59
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.35
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.17
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.87
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.83
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.45
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.01
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.60
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.06
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.93
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.56
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.17
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.87
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.78
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.60
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.22
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.52
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.44
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.43
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.31
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.68
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.53
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.27
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.09
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.53
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.28
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.22
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.86
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.19
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.46
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.04
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.95
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.50
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.32
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.68
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.46
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.77
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.95
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.49
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.26
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.22
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.79
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.70
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.49
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.68
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.63
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.37
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.98
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.83
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.57
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.40
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.55
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.60
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.86
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.65
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.80
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.87
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.76
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.82
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.53
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	60.98
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.93
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.11
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.16
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.04
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.71
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.90
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.45
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.76
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.32
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.02
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.15
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.73
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.89
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.21
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.25
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.13
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.98
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.31
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.44
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.67
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.06
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.11
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.63
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.01
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.12
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.55
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.28
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.78
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.43
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.97
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	34.93
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	33.22
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	20.69
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.03
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	13.42
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	12.96
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.82
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.10
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.39
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.74

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.