Gene detail

Detailed information of OS493_015534-T1 in Lophelia pertusa

Genomic Location: scaffold_47:311802...313873
NR annotation: KAJ7360433.1, 37S ribosomal protein S17 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
Q9Y2R5	Small ribosomal subunit protein uS17m OS=Homo sapiens OX=9606 GN=MRPS17 PE=1 SV=1
P82916	Small ribosomal subunit protein uS17m OS=Bos taurus OX=9913 GN=MRPS17 PE=1 SV=3
B6EPT4	Small ribosomal subunit protein uS17 OS=Aliivibrio salmonicida (strain LFI1238) OX=316275 GN=rpsQ PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009397 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00366 all species →	Ribosomal_S17	Ribosomal protein S17	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000266 all species →	Family	Small ribosomal subunit protein uS17	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR039193 all species →	Family	Small ribosomal subunit protein uS17m, metazoa	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24088 all species →	28S RIBOSOMAL PROTEIN S17, MITOCHONDRIAL	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: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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K02961	RP-S17, MRPS17, rpsQ; small subunit ribosomal protein S17	-	Ribosome	ko03011	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_015534-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

50.0Max TPM

13.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	15.54	29.15
polyp at pH7 6	18	18	16.55	34.43
coral polyp · control treatment	16	16	15.01	49.96
coral polyp · oil and dispersant treatment	16	16	10.33	36.65
coral polyp · oil treatment	16	16	14.17	21.48
coral polyp · dispersant treatment	16	15	5.05	11.96
Polyp	10	10	21.73	37.90

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.15
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.07
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.30
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.06
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.99
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.51
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.40
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.17
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.81
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.51
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.91
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.73
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.97
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.89
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.07
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.80
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.51
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.86
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.43
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.18
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.85
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.66
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.06
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.20
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.36
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.10
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.20
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.67
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.25
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.08
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.05
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.67
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.30
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.29
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.44
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.08
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.96
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.32
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.46
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.92
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.74
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.35
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.32
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.71
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.07
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.05
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.88
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.56
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.06
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.80
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.32
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.66
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.65
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.34
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.35
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.01
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.56
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.44
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.76
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.19
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.11
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.95
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.86
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.44
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.68
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.93
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.86
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.22
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.48
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.31
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.83
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.57
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.64
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.38
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.15
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.78
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.40
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.23
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.58
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.58
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.55
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.25
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.83
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.21
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.96
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.11
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.46
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.17
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.57
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.37
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.40
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.18
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.14
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.22
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.83
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.61
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.28
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.67
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	37.90
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	30.97
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	30.62
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	29.03
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	23.41
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	20.39
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	17.90
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.90
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9.61
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.62

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.