Gene detail

Detailed information of OS493_037581-T1 in Lophelia pertusa

Genomic Location: scaffold_437:144725...148495
NR annotation: KAJ7350963.1, Peptidyl-tRNA hydrolase ict1, mitochondrial [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
Q8R035	Large ribosomal subunit protein mL62 OS=Mus musculus OX=10090 GN=Mrpl58 PE=1 SV=1
Q14197	Large ribosomal subunit protein mL62 OS=Homo sapiens OX=9606 GN=MRPL58 PE=1 SV=1
D2HD32	Large ribosomal subunit protein mL62 OS=Ailuropoda melanoleuca OX=9646 GN=MRPL58 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007905 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_037581-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

No InterPro signature was detected for OS493_037581-T1. This gene does have a gene model — the search simply returned no hit.

PANTHER

PANTHER term	Description	Source
PTHR47352 all species →	CLASS I PEPTIDE CHAIN RELEASE FACTOR	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_037581-T1. This gene does have a gene model — the search simply returned no hit.

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_037581-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_037581-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

106TPM > 0

7Conditions

13.5Max TPM

6.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	6.00	9.31
polyp at pH7 6	18	17	6.93	12.02
coral polyp · control treatment	16	16	8.78	13.48
coral polyp · oil and dispersant treatment	16	16	7.08	10.69
coral polyp · oil treatment	16	16	8.30	11.48
coral polyp · dispersant treatment	16	15	4.86	10.44
Polyp	10	9	5.83	13.06

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.31
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.08
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.19
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.86
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.78
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.14
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.84
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.45
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.43
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.29
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.95
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.81
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.63
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.41
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.34
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.36
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.02
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.77
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.94
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.53
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.31
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.02
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.19
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.16
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.75
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.52
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.34
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.78
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.37
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.35
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.45
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.48
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.01
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.87
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.58
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.74
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.69
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.57
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.76
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.03
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.87
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.55
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.97
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.52
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.16
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.97
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.67
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.69
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.93
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.71
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.69
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.44
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.07
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.77
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.65
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.50
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.02
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.66
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.42
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.33
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.16
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.09
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.20
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.48
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.41
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.33
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.15
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.70
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.02
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.88
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.85
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.37
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.34
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.25
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.98
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.98
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.43
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.11
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.49
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.44
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.17
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.78
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.45
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.30
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.17
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.15
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.07
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.83
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.69
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.40
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.73
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.96
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.07
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.06
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.76
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.91
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.85
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.77
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.76
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.36
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.93
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.96
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.