Gene detail

Detailed information of OS493_032966-T1 in Lophelia pertusa

Genomic Location: scaffold_252:378226...379022
NR annotation: KAJ7322781.1, 30S ribosomal protein S11, chloroplastic [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
Q3T0V4	Small ribosomal subunit protein uS17 OS=Bos taurus OX=9913 GN=RPS11 PE=2 SV=3
Q9XSU4	Small ribosomal subunit protein uS17 OS=Canis lupus familiaris OX=9615 GN=RPS11 PE=1 SV=2
P62280	Small ribosomal subunit protein uS17 OS=Homo sapiens OX=9606 GN=RPS11 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007116 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16205 all species →	Ribosomal_S17_N	Ribosomal_S17 N-terminal	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000266 all species →	Family	Small ribosomal subunit protein uS17	Interproscan
IPR032440 all species →	Domain	Small ribosomal subunit protein uS17, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10744 all species →	40S RIBOSOMAL PROTEIN S11 FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0006412 all species →	Biological Process	translation	Interproscan
GO:0022627 all species →	Cellular Component	cytosolic small 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_032966-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_032966-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

5,073.0Max TPM

2,782.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3,553.62	4,371.15
polyp at pH7 6	18	18	3,299.32	4,445.28
coral polyp · control treatment	16	16	2,325.31	3,541.60
coral polyp · oil and dispersant treatment	16	16	2,105.34	3,273.58
coral polyp · oil treatment	16	16	2,683.59	4,359.04
coral polyp · dispersant treatment	16	16	1,926.62	3,999.21
Polyp	10	10	3,809.27	5,072.98

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,371.15
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,317.92
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,207.07
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,093.31
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,088.10
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,082.85
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,770.66
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,756.39
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,725.91
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,690.37
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,374.05
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,302.05
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,979.63
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,962.52
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,927.45
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,919.41
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,710.91
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,685.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,445.28
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,438.24
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,673.20
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,589.13
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,521.48
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,521.36
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,507.53
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,437.59
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,417.44
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,378.60
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,340.91
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,327.16
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,141.03
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,094.42
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,481.27
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,479.53
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,343.76
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,249.75
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,541.60
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,251.03
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,191.64
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,124.22
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,676.51
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,507.23
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,506.92
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,341.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,203.68
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,063.12
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,880.96
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,853.72
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,703.72
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,686.10
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,427.84
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,245.06
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,273.58
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,921.16
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,427.27
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,350.29
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,331.44
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,134.41
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,051.13
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,010.96
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,010.01
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,960.21
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,927.81
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,782.59
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,764.94
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,612.89
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,592.31
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,534.35
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,359.04
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,870.36
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,495.39
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,170.85
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,783.17
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,760.14
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,602.22
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,507.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,479.90
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,438.94
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,432.34
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,413.52
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,268.72
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,954.28
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,855.28
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,545.45
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,999.21
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,991.44
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,081.67
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,935.56
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,851.97
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,790.02
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,723.61
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,700.56
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,580.53
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,580.35
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,570.86
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,558.84
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,487.58
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,349.02
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,341.67
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,283.03
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5,072.98
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4,526.36
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4,058.78
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3,944.08
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3,885.56
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3,551.53
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3,411.83
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3,334.09
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3,261.75
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3,045.71

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.