Gene detail

Detailed information of OS493_029362-T1 in Lophelia pertusa

Genomic Location: scaffold_178:60335...63463
NR annotation: KAJ7370819.1, 39S ribosomal protein L46, 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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003482 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF11788 all species →	MRP-L46	39S mitochondrial ribosomal protein L46	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR040008 all species →	Family	Large ribosomal subunit protein mL46	Interproscan
IPR021757 all species →	Domain	Large ribosomal subunit protein mL46, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13124 all species →	39S RIBOSOMAL PROTEIN L46, MITOCHONDRIAL PRECURSOR-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005762 all species →	Cellular Component	mitochondrial large ribosomal subunit	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_029362-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_029362-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

39.6Max TPM

12.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	13.49	23.51
polyp at pH7 6	18	18	13.98	23.23
coral polyp · control treatment	16	16	12.35	19.94
coral polyp · oil and dispersant treatment	16	16	8.28	19.81
coral polyp · oil treatment	16	16	12.65	18.94
coral polyp · dispersant treatment	16	16	6.51	14.15
Polyp	10	10	22.20	39.57

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.51
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.04
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.85
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.80
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.57
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.73
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.71
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.26
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.19
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.02
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.88
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.81
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.71
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.53
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.59
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.58
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.42
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.66
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.23
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.58
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.10
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.49
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.58
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.66
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.13
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.01
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.84
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.78
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.59
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.26
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.89
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.83
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.01
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.91
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.60
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.23
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.94
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.24
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.89
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.32
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.02
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.78
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.63
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.71
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.54
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.33
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.63
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.48
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.95
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.58
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.88
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.81
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.81
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.38
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.42
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.13
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.81
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.06
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.67
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.45
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.43
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.37
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.14
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.80
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.80
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.29
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.17
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.94
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.75
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.89
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.81
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.70
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.20
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.85
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.64
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.48
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.39
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.69
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.12
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.07
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.88
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.48
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.45
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.15
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.59
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.63
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.86
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.41
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.19
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.13
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.96
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.99
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.97
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.89
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.61
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.02
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.48
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.35
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	39.57
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	36.49
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	32.36
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	29.76
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	21.89
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	19.15
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	17.53
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.95
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.19
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.12

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.