Gene detail

Detailed information of OS493_013500-T1 in Lophelia pertusa

Genomic Location: scaffold_37:456898...459533
NR annotation: KAJ7392128.1, 60S ribosomal protein L12 [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
Q6QMZ7	Large ribosomal subunit protein uL11 OS=Chinchilla lanigera OX=34839 GN=RPL12 PE=2 SV=1
P61284	Large ribosomal subunit protein uL11 OS=Bos taurus OX=9913 GN=RPL12 PE=2 SV=1
E2RR58	Large ribosomal subunit protein uL11 OS=Canis lupus familiaris OX=9615 GN=RPL12 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008406 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00298 all species →	Ribosomal_L11	Ribosomal protein L11, RNA binding domain	Domain	Interproscan
PF03946 all species →	Ribosomal_L11_N	Ribosomal protein L11, N-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000911 all species →	Family	Ribosomal protein uL11	Interproscan
IPR036796 all species →	Homologous_superfamily	Large ribosomal subunit protein uL11, N-terminal domain superfamily	Interproscan
IPR020783 all species →	Domain	Large ribosomal subunit protein uL11, C-terminal	Interproscan
IPR036769 all species →	Homologous_superfamily	Large ribosomal subunit protein uL11, C-terminal domain superfamily	Interproscan
IPR020785 all species →	Conserved_site	Large ribosomal subunit protein uL11, conserved site	Interproscan
IPR020784 all species →	Domain	Large ribosomal subunit protein uL11, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11661 all species →	60S RIBOSOMAL PROTEIN L12	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:0015934 all species →	Cellular Component	large ribosomal subunit	Interproscan
GO:0022625 all species →	Cellular Component	cytosolic large ribosomal subunit	Interproscan
GO:0070180 all species →	Molecular Function	large ribosomal subunit 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
K02870	RP-L12e, RPL12; large subunit ribosomal protein L12e	-	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_013500-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

9,838.9Max TPM

4,546.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5,337.97	6,886.41
polyp at pH7 6	18	18	5,732.61	8,176.72
coral polyp · control treatment	16	16	3,832.03	6,730.11
coral polyp · oil and dispersant treatment	16	16	3,266.12	5,595.42
coral polyp · oil treatment	16	16	4,264.73	6,780.99
coral polyp · dispersant treatment	16	16	3,169.44	8,167.05
Polyp	10	10	6,836.31	9,838.85

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	-	6,886.41
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,852.98
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,469.15
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,425.70
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,642.14
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,605.82
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,537.07
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,499.40
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,372.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,335.37
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,259.92
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,166.72
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,050.12
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,008.73
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,334.05
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,292.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,680.58
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,663.58
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8,176.72
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8,174.49
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,008.17
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,979.94
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,604.54
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,523.22
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,724.07
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,705.14
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,385.93
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,380.33
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,091.93
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,992.92
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,736.73
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,724.67
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,722.14
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,674.07
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,302.80
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,279.14
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6,730.11
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,744.45
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,181.44
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,098.13
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,642.23
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,320.72
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,237.33
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,583.97
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,239.22
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,217.10
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,060.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,040.25
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,499.65
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,421.06
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,416.07
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,880.53
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5,595.42
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,186.47
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,740.24
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,558.91
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,514.95
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,449.34
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,445.79
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,242.97
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,142.30
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,009.62
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,867.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,605.83
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,605.20
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,580.61
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,402.18
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,310.98
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6,780.99
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,896.81
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,644.60
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,162.79
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,396.53
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,337.74
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,222.56
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,162.77
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,135.44
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,041.48
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,870.22
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,790.13
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,676.21
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,779.86
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,742.70
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,594.91
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8,167.05
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7,955.75
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,034.52
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,009.87
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,004.13
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,733.61
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,589.27
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,528.24
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,519.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,508.09
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,433.85
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,280.94
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,266.42
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,988.14
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,864.44
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,827.48
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9,838.85
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8,200.06
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7,838.78
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7,824.84
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7,456.38
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7,367.13
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6,811.11
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5,199.37
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4,301.52
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3,525.03

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.