Gene detail

Detailed information of OS493_029558-T1 in Lophelia pertusa

Genomic Location: scaffold_181:260784...266817
NR annotation: KAJ7389674.1, 60S ribosomal protein L21 [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
Q6QN05	Large ribosomal subunit protein eL21 OS=Chinchilla lanigera OX=34839 GN=RPL21 PE=2 SV=3
P46778	Large ribosomal subunit protein eL21 OS=Homo sapiens OX=9606 GN=RPL21 PE=1 SV=2
P49666	Large ribosomal subunit protein eL21 OS=Sus scrofa OX=9823 GN=RPL21 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006349 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01157 all species →	Ribosomal_L21e	Ribosomal protein L21e	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036948 all species →	Homologous_superfamily	Large ribosomal subunit protein eL21 superfamily	Interproscan
IPR018259 all species →	Conserved_site	Large ribosomal subunit protein eL21, conserved site	Interproscan
IPR001147 all species →	Family	Large ribosomal subunit protein eL21	Interproscan
IPR008991 all species →	Homologous_superfamily	Translation protein SH3-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20981 all species →	60S RIBOSOMAL PROTEIN L21	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:0022625 all species →	Cellular Component	cytosolic large 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K02889	RP-L21e, RPL21; large subunit ribosomal protein L21e	-	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_029558-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

8,269.1Max TPM

3,496.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4,569.21	6,346.30
polyp at pH7 6	18	18	4,427.50	5,750.38
coral polyp · control treatment	16	16	2,673.81	5,249.56
coral polyp · oil and dispersant treatment	16	16	2,311.13	3,614.61
coral polyp · oil treatment	16	16	3,057.98	5,050.71
coral polyp · dispersant treatment	16	16	2,310.32	7,048.43
Polyp	10	10	5,705.94	8,269.10

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	-	6,346.30
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,315.50
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,293.09
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,217.28
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,026.35
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,943.60
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,874.84
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,799.80
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,637.60
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,612.42
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,227.54
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,153.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,907.22
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,844.34
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,734.91
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,702.86
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,328.79
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,280.23
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,750.38
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,713.99
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,093.30
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,021.43
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,997.43
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,978.31
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,922.29
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,901.74
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,996.14
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,976.11
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,946.31
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,928.40
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,916.04
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,911.92
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,882.15
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,859.37
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,451.17
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,448.46
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,249.56
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,677.04
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,583.10
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,301.75
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,066.65
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,031.71
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,680.89
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,642.48
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,256.49
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,241.93
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,082.86
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,053.90
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,961.13
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,777.74
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,718.08
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,455.74
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,614.61
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,316.58
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,841.32
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,692.16
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,348.36
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,328.76
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,291.67
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,209.56
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,177.19
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,108.27
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,078.42
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,030.61
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,821.77
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,772.58
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,708.90
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,637.34
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,050.71
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,014.24
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,800.42
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,547.14
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,267.92
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,093.86
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,966.06
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,728.28
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,662.74
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,611.64
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,573.76
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,568.32
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,515.48
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,509.37
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,185.14
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,832.68
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7,048.43
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5,296.70
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,364.42
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,246.80
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,107.86
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,927.55
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,892.94
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,886.71
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,848.45
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,702.23
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,633.23
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,617.80
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,499.47
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,390.91
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,269.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,231.66
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8,269.10
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8,254.71
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8,214.79
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8,027.90
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5,339.82
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4,282.57
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3,918.74
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3,825.09
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3,463.47
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3,463.18

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.