Gene detail

Detailed information of OS493_004254-T1 in Lophelia pertusa

Genomic Location: scaffold_8:4271474...4278552
NR annotation: KAJ7387277.1, Structural constituent of ribosome [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008386 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10484 all species →	MRP-S23	Mitochondrial ribosomal protein S23	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019520 all species →	Family	Small ribosomal subunit protein mS23, metazoa	Interproscan
IPR023611 all species →	Domain	Small ribosomal subunit protein mS23, conserved domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15925 all species →	MITOCHONDRIAL RIBOSOMAL PROTEIN S23	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0006412 all species →	Biological Process	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

No KEGG orthology assignment for OS493_004254-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_004254-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

69.3Max TPM

15.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.13	18.69
polyp at pH7 6	18	18	16.53	25.02
coral polyp · control treatment	16	16	18.26	50.05
coral polyp · oil and dispersant treatment	16	16	16.16	69.27
coral polyp · oil treatment	16	16	14.79	30.99
coral polyp · dispersant treatment	16	16	11.61	24.57
Polyp	10	10	19.43	30.42

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	-	18.69
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.48
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.18
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.12
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.41
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.23
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.11
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.84
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.80
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.45
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.10
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.72
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.68
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.47
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.37
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.39
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.22
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.12
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.02
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.69
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.94
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.94
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.08
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.05
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.68
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.61
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.05
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.59
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.05
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.94
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.82
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.77
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.69
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.68
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.01
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.05
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.63
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.39
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.79
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.76
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.66
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.35
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.73
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.21
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.98
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.20
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.59
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.33
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.80
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.19
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.27
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.63
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.95
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.35
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.81
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.72
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.21
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.08
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.41
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.32
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.99
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.81
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.80
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.54
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.34
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.37
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.99
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.29
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.05
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.88
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.27
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.04
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.02
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.84
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.91
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.88
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.74
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.64
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.11
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.08
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.47
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.48
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.57
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.74
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.74
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.51
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.66
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.50
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.35
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.93
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.17
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.35
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.80
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.34
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.74
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.68
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.52
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.15
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	30.42
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	24.35
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	23.75
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.21
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	19.53
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	19.40
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	19.18
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	14.54
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	12.98
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.95

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.