Gene detail

Detailed information of OS493_019455-T1 in Lophelia pertusa

Genomic Location: scaffold_67:1746234...1747983
NR annotation: KAJ7391322.1, 40S ribosomal protein S23 [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
Q3T199	Small ribosomal subunit protein uS12 OS=Bos taurus OX=9913 GN=RPS23 PE=1 SV=1
P62298	Small ribosomal subunit protein uS12 OS=Chinchilla lanigera OX=34839 GN=RPS23 PE=2 SV=1
P62266	Small ribosomal subunit protein uS12 OS=Homo sapiens OX=9606 GN=RPS23 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009017 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00164 all species →	Ribosom_S12_S23	Ribosomal protein S12/S23	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005680 all species →	Family	Small ribosomal subunit protein uS12, eukaryotic/archaeal	Interproscan
IPR006032 all species →	Family	Small ribosomal subunit protein uS12	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11652 all species →	30S RIBOSOMAL PROTEIN S12 FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0006412 all species →	Biological Process	translation	Interproscan
GO:0015935 all species →	Cellular Component	small ribosomal subunit	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K02973	RP-S23e, RPS23; small subunit ribosomal protein S23e	-	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_019455-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

6,634.0Max TPM

4,028.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4,901.05	6,633.97
polyp at pH7 6	18	18	4,833.22	5,903.40
coral polyp · control treatment	16	16	3,605.58	5,307.38
coral polyp · oil and dispersant treatment	16	16	3,165.49	4,288.66
coral polyp · oil treatment	16	16	3,941.20	5,965.99
coral polyp · dispersant treatment	16	16	2,674.80	3,615.76
Polyp	10	10	5,368.14	5,998.81

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,633.97
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,571.35
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,913.84
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,863.29
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,553.29
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,538.71
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,305.80
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,275.47
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,032.71
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,980.15
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,162.01
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,158.30
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,134.80
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,120.61
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,759.45
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,749.98
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,736.45
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,728.80
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,903.40
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,842.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,514.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,507.23
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,104.46
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,075.15
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,057.31
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,935.92
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,932.70
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,905.87
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,579.17
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,544.21
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,515.23
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,453.23
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,119.99
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,105.08
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,973.09
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,928.45
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,307.38
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,859.40
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,396.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,123.71
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,052.18
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,042.52
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,827.35
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,670.92
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,492.24
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,394.65
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,271.70
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,991.71
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,979.80
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,843.83
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,415.40
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,020.43
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,288.66
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,007.01
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,776.21
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,534.22
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,406.49
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,328.55
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,183.28
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,118.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,102.88
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,081.96
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,873.62
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,790.12
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,588.66
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,584.78
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,538.39
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,444.99
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,965.99
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,031.35
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,594.79
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,451.18
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,085.72
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,966.64
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,860.21
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,753.97
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,665.95
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,634.31
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,621.28
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,607.52
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,492.56
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,365.60
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,140.66
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,821.47
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,615.76
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,533.02
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,379.73
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,251.77
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,062.61
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,863.47
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,788.24
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,743.07
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,630.80
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,386.87
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,302.03
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,233.25
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,197.09
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,174.90
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,011.09
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,623.07
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5,998.81
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5,760.28
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5,651.10
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5,597.65
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5,434.46
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5,203.65
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5,200.35
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4,997.27
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4,975.01
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4,862.85

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.