Gene detail

Detailed information of OS493_020717-T1 in Lophelia pertusa

Genomic Location: scaffold_77:778561...786065
NR annotation: KAJ7358879.1, 28S ribosomal protein S10, 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
Q5SPH9	Small ribosomal subunit protein uS10m OS=Danio rerio OX=7955 GN=mrps10 PE=3 SV=1
P82664	Small ribosomal subunit protein uS10m OS=Homo sapiens OX=9606 GN=MRPS10 PE=1 SV=2
Q5RFM3	Small ribosomal subunit protein uS10m OS=Pongo abelii OX=9601 GN=MRPS10 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001920 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00338 all species →	Ribosomal_S10	Ribosomal protein S10p/S20e	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036838 all species →	Homologous_superfamily	Small ribosomal subunit protein uS10 domain superfamily	Interproscan
IPR001848 all species →	Family	Small ribosomal subunit protein uS10	Interproscan
IPR027486 all species →	Domain	Small ribosomal subunit protein uS10 domain	Interproscan
IPR040055 all species →	Family	Small ribosomal subunit protein uS10m	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13334 all species →	MITOCHONDRIAL 28S RIBOSOMAL PROTEIN S10	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:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0005763 all species →	Cellular Component	mitochondrial 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_020717-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_020717-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

48.7Max TPM

10.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.38	22.08
polyp at pH7 6	18	18	10.86	21.05
coral polyp · control treatment	16	16	9.75	30.19
coral polyp · oil and dispersant treatment	16	16	8.47	48.66
coral polyp · oil treatment	16	16	8.90	14.19
coral polyp · dispersant treatment	16	16	4.93	13.97
Polyp	10	10	22.05	37.37

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.08
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.37
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.31
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.93
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.18
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.05
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.07
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.47
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.31
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.20
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.06
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.14
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.74
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.02
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.38
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.93
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.21
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.43
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.05
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.85
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.58
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.42
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.97
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.75
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.42
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.91
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.74
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.31
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.62
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.98
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.36
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.44
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.82
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.71
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.20
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.19
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.05
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.64
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.36
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.25
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.58
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.35
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.56
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.11
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.04
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.94
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.44
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.11
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.85
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.73
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.66
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.48
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.88
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.54
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.31
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.25
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.81
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.79
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.57
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.52
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.59
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.59
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.49
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.95
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.16
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.01
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.19
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.23
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.75
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.24
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.99
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.16
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.99
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.91
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.91
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.23
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.30
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.14
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.86
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.50
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.03
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.94
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.97
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.43
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.23
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.67
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.27
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.15
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.50
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.04
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.87
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.66
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.61
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.11
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.10
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.80
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.38
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	37.37
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	36.48
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	31.66
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	25.79
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	19.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	18.22
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	17.95
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	13.02
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.97
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.04

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.