Gene detail

Detailed information of OS493_013922-T1 in Lophelia pertusa

Genomic Location: scaffold_38:2622825...2626933
NR annotation: KAJ7385886.1, hypothetical protein OS493_013922 [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)	OG0006946 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_013922-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR009068 all species →	Homologous_superfamily	uS15/NS1, RNA-binding domain superfamily	Interproscan
IPR052137 all species →	Family	Universal small ribosomal subunit uS15	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46685 all species →	28S RIBOSOMAL PROTEIN S15, MITOCHONDRIAL	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005763 all species →	Cellular Component	mitochondrial small ribosomal subunit	Interproscan
GO:0032543 all species →	Biological Process	mitochondrial translation	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_013922-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_013922-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

86.0Max TPM

23.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	27.30	48.02
polyp at pH7 6	18	18	31.47	44.79
coral polyp · control treatment	16	16	19.85	60.25
coral polyp · oil and dispersant treatment	16	16	14.94	60.85
coral polyp · oil treatment	16	16	19.00	27.07
coral polyp · dispersant treatment	16	16	9.99	20.30
Polyp	10	10	52.47	86.04

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.02
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.90
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.61
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.63
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.13
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.95
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.62
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.54
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.86
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.14
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.98
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.41
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.16
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.60
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.09
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.34
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.39
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.79
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.51
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.39
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.53
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.31
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.52
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.14
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.98
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.56
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.23
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.51
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.87
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.52
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.42
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.95
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.16
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.25
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.77
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.92
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.16
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.87
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.24
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.92
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.99
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.67
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.57
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.50
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.67
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.51
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.15
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.68
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.75
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.85
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.24
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.01
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.59
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.52
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.68
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.52
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.67
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.35
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.32
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.73
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.82
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.19
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.88
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.85
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.77
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.07
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.68
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.11
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.28
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.22
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.51
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.97
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.51
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.23
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.82
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.03
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.53
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.68
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.87
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.54
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.30
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.42
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.80
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.73
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.31
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.45
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.95
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.62
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.50
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.08
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.38
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.69
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.57
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.15
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.06
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.80
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	86.04
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	76.69
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	69.50
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	68.48
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	49.79
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	46.08
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	42.32
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	32.12
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	30.94
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	22.75

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.