Gene detail

Detailed information of OS493_036002-T1 in Lophelia pertusa

Genomic Location: scaffold_343:207216...213972
NR annotation: KAJ7388724.1, ribosomal protein L18 [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
Q9H0U6	Large ribosomal subunit protein uL18m OS=Homo sapiens OX=9606 GN=MRPL18 PE=1 SV=1
Q9CQL5	Large ribosomal subunit protein uL18m OS=Mus musculus OX=10090 GN=Mrpl18 PE=1 SV=1
Q3ZBR7	Large ribosomal subunit protein uL18m OS=Bos taurus OX=9913 GN=MRPL18 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007787 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00861 all species →	Ribosomal_L18p	Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036967 all species →	Homologous_superfamily	Small ribosomal subunit protein uS11 superfamily	Interproscan
IPR005484 all species →	Family	Large ribosomal subunit protein uL18	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12899 all species →	39S RIBOSOMAL PROTEIN L18, MITOCHONDRIAL	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:0008097 all species →	Molecular Function	5S rRNA binding	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K02881	RP-L18, MRPL18, rplR; large subunit ribosomal protein L18	-	Ribosome	ko03011	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_036002-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

109TPM > 0

7Conditions

64.1Max TPM

9.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.88	17.15
polyp at pH7 6	18	18	11.63	25.39
coral polyp · control treatment	16	16	10.16	33.30
coral polyp · oil and dispersant treatment	16	16	9.36	64.13
coral polyp · oil treatment	16	16	9.80	15.26
coral polyp · dispersant treatment	16	16	5.74	11.91
Polyp	10	9	14.64	33.66

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.15
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.63
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.10
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.89
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.86
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.16
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.03
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.62
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.46
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.44
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.59
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.52
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.28
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.24
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.81
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.50
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.24
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.22
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.39
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.14
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.42
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.40
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.69
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.03
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.42
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.99
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.72
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.33
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.06
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.85
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.71
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.40
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.29
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.60
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.85
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.30
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.19
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.42
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.83
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.93
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.54
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.28
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.65
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.95
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.50
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.16
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.94
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.08
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.17
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.82
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.81
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.86
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.92
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.46
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.45
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.68
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.82
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.25
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.70
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.68
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.25
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.98
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.84
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.60
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.87
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.30
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.26
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.43
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.07
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.47
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.36
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.97
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.89
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.26
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.77
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.69
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.53
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.23
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.94
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.42
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.45
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.01
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.91
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.15
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.37
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.51
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.48
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.21
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.99
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.87
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.03
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.75
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.26
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.19
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.68
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.28
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	33.66
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	25.64
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	19.10
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	17.16
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.65
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	14.13
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.75
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.31
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.03
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.