Gene detail

Detailed information of OS493_026683-T1 in Lophelia pertusa

Genomic Location: scaffold_139:341801...343568
NR annotation: KAJ7390176.1, 28S ribosomal protein S24, 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
Q6NTS3	Small ribosomal subunit protein uS3mA OS=Xenopus laevis OX=8355 GN=mrps24-a PE=2 SV=1
Q3B8K3	Small ribosomal subunit protein uS3mB OS=Xenopus laevis OX=8355 GN=mrps24-b PE=2 SV=1
Q502C1	Small ribosomal subunit protein uS3m OS=Danio rerio OX=7955 GN=mrps24 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008594 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14955 all species →	MRP-S24	Mitochondrial ribosome subunit S24	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR026146 all species →	Family	Small ribosomal subunit protein uS3m, metazoan	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21244 all species →	MITOCHONDRIAL 28S RIBOSOMAL PROTEIN S24	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005739 all species →	Cellular Component	mitochondrion	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_026683-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_026683-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

364.0Max TPM

27.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.46	30.15
polyp at pH7 6	18	18	22.94	38.39
coral polyp · control treatment	16	16	23.62	58.44
coral polyp · oil and dispersant treatment	16	16	30.73	130.90
coral polyp · oil treatment	16	16	20.66	32.35
coral polyp · dispersant treatment	16	16	52.49	363.98
Polyp	10	10	20.43	39.16

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	-	30.15
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.94
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.30
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.02
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.68
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.66
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.19
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.19
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.36
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.42
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.22
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.60
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.97
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.96
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.10
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.75
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.17
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.58
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.39
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.35
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.84
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.18
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.52
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.44
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.92
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.87
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.55
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.18
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.77
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.83
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.29
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.28
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.65
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.91
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.44
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.71
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.50
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.80
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.25
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.28
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.49
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.87
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.88
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.96
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.85
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.25
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.99
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.24
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.94
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.44
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	130.90
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	81.24
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.49
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.24
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.74
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.14
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.71
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.21
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.05
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.67
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.11
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.31
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.59
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.14
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.47
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.35
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.25
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.82
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.05
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.36
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.62
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.36
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.54
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.37
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.22
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.58
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.71
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.96
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.54
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.93
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.96
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	363.98
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	264.89
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.68
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.96
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.70
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.55
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.51
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.45
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.36
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.19
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.64
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.35
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.66
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.30
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.65
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	39.16
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	30.08
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	23.36
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	23.31
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	19.30
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.49
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	14.99
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.79
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	12.60
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	11.21

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.