Gene detail

Detailed information of OS493_011335-T1 in Lophelia pertusa

Genomic Location: scaffold_28:2953984...2955130
NR annotation: KAJ7373726.1, ribosomal 40S subunit protein S10A [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
Q90YR4	Small ribosomal subunit protein eS10 OS=Ictalurus punctatus OX=7998 GN=rps10 PE=2 SV=1
P63325	Small ribosomal subunit protein eS10 OS=Mus musculus OX=10090 GN=Rps10 PE=1 SV=1
P63326	Small ribosomal subunit protein eS10 OS=Rattus norvegicus OX=10116 GN=Rps10 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006573 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_011335-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR037447 all species →	Family	Small ribosomal subunit protein eS10	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12146 all species →	40S RIBOSOMAL PROTEIN S10	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: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_011335-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_011335-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

5,275.4Max TPM

2,928.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3,631.19	4,612.69
polyp at pH7 6	18	18	3,336.10	4,483.04
coral polyp · control treatment	16	16	2,814.92	5,275.39
coral polyp · oil and dispersant treatment	16	16	2,336.87	3,793.76
coral polyp · oil treatment	16	16	3,120.91	5,073.53
coral polyp · dispersant treatment	16	16	2,087.16	4,667.34
Polyp	10	10	3,097.02	3,681.88

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,612.69
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,604.26
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,318.46
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,272.72
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,042.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,027.17
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,908.08
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,878.43
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,684.51
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,581.91
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,352.03
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,347.97
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,327.48
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,308.90
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,821.72
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,805.76
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,734.89
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,731.59
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,483.04
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,450.15
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,577.80
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,555.69
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,534.24
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,448.22
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,447.42
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,446.58
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,380.45
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,350.73
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,236.70
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,199.71
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,185.32
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,139.60
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,735.31
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,733.88
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,608.17
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,536.86
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,275.39
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,882.43
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,733.27
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,369.03
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,351.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,274.77
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,988.72
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,946.42
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,462.49
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,382.23
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,319.87
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,173.38
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,038.25
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,847.20
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,648.51
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,345.15
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,793.76
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,082.76
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,929.86
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,708.55
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,494.30
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,350.46
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,291.45
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,191.52
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,132.96
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,094.58
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,090.88
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,967.16
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,919.83
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,878.49
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,794.74
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,668.64
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,073.53
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,010.87
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,005.23
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,706.47
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,087.32
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,071.26
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,053.63
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,835.06
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,817.35
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,738.91
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,678.10
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,677.23
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,664.84
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,623.13
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,136.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,755.17
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4,667.34
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,884.18
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,373.51
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,182.12
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,170.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,929.60
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,872.79
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,828.87
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,816.80
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,654.48
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,630.83
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,620.44
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,604.63
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,415.12
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,371.72
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,371.64
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3,681.88
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3,609.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3,453.42
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3,381.28
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3,035.20
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2,942.84
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2,829.26
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2,796.36
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2,722.23
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2,518.75

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.