Gene detail

Detailed information of OS493_024756-T1 in Lophelia pertusa

Genomic Location: scaffold_117:555143...556127
NR annotation: KAJ7378093.1, ribosomal protein S5 [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
Q5E988	Small ribosomal subunit protein uS7 OS=Bos taurus OX=9913 GN=RPS5 PE=2 SV=3
P46782	Small ribosomal subunit protein uS7 OS=Homo sapiens OX=9606 GN=RPS5 PE=1 SV=4
G1TFM5	Small ribosomal subunit protein uS7 OS=Oryctolagus cuniculus OX=9986 GN=RPS5 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006057 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_024756-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR000235 all species →	Family	Small ribosomal subunit protein uS7	Interproscan
IPR036823 all species →	Homologous_superfamily	Small ribosomal subunit protein uS7 domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11205 all species →	RIBOSOMAL PROTEIN S7	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000028 all species →	Biological Process	ribosomal small subunit assembly	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
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:0019843 all species →	Molecular Function	rRNA binding	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_024756-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_024756-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

2,007.1Max TPM

1,001.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	940.64	1,260.12
polyp at pH7 6	18	18	969.47	1,286.39
coral polyp · control treatment	16	16	1,087.40	2,007.09
coral polyp · oil and dispersant treatment	16	16	945.43	1,545.05
coral polyp · oil treatment	16	16	1,094.75	1,718.59
coral polyp · dispersant treatment	16	16	824.33	1,376.38
Polyp	10	10	1,257.22	1,646.64

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,260.12
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,241.36
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,217.50
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,215.18
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,025.39
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,019.54
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,015.83
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	998.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	997.14
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	975.48
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	827.81
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	825.34
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	825.02
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	807.70
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	707.84
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	704.20
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	644.25
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	623.77
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,286.39
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,269.51
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,234.39
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,233.08
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,226.27
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,186.16
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,057.59
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,051.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	964.63
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	962.49
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	844.55
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	842.53
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	832.49
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	810.75
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	699.49
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	688.06
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	673.76
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	586.91
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,007.09
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,734.27
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,716.82
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,593.27
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,391.10
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,344.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,294.72
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,219.80
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	994.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	982.55
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	769.85
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	769.42
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	548.82
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	388.90
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	349.60
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	293.06
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,545.05
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,396.35
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,208.35
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,202.19
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,167.40
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,145.27
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,110.50
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,090.93
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,082.71
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	978.34
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	818.21
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	783.46
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	470.97
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	427.04
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	363.89
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	336.15
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,718.59
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,645.08
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,638.13
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,485.80
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,476.13
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,337.94
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,161.01
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,146.38
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,119.34
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,055.54
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	940.39
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	844.62
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	608.75
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	482.50
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	437.08
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	418.70
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,376.38
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,284.97
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,139.39
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,104.36
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,045.64
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,040.97
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	999.42
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	979.68
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	886.93
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	789.11
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	736.00
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	708.23
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	323.92
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	279.87
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	260.29
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	234.10
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1,646.64
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1,576.03
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1,552.84
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1,362.43
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1,322.93
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1,271.68
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1,217.96
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	945.87
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	877.97
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	797.86

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.