Gene detail

Detailed information of OS493_021122-T1 in Lophelia pertusa

Genomic Location: scaffold_80:324993...327634
NR annotation: KAJ7384493.1, 60S ribosomal protein L17 [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
P37380	Large ribosomal subunit protein uL22 OS=Podocoryna carnea OX=6096 GN=RPL17 PE=2 SV=1
Q3T025	Large ribosomal subunit protein uL22 OS=Bos taurus OX=9913 GN=RPL17 PE=2 SV=3
Q9CPR4	Large ribosomal subunit protein uL22 OS=Mus musculus OX=10090 GN=Rpl17 PE=1 SV=4

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008311 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00237 all species →	Ribosomal_L22	Ribosomal protein L22p/L17e	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005721 all species →	Family	Large ribosomal subunit protein uL22, eukaryotic/archaeal	Interproscan
IPR036394 all species →	Homologous_superfamily	Ribosomal protein uL22 superfamily	Interproscan
IPR018260 all species →	Conserved_site	Large ribosomal subunit protein uL22, conserved site	Interproscan
IPR001063 all species →	Family	Large ribosomal subunit protein uL22	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11593 all species →	60S RIBOSOMAL PROTEIN L17	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0006412 all species →	Biological Process	translation	Interproscan
GO:0015934 all species →	Cellular Component	large ribosomal subunit	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0002181 all species →	Biological Process	cytoplasmic 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
K02880	RP-L17e, RPL17; large subunit ribosomal protein L17e	-	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_021122-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

9,768.3Max TPM

5,143.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6,648.41	7,981.81
polyp at pH7 6	18	18	6,152.19	8,198.81
coral polyp · control treatment	16	16	4,304.96	7,443.28
coral polyp · oil and dispersant treatment	16	16	3,730.40	6,828.94
coral polyp · oil treatment	16	16	4,929.89	9,495.08
coral polyp · dispersant treatment	16	16	3,596.49	9,768.32
Polyp	10	10	7,036.73	8,441.41

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	-	7,981.81
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,969.37
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,795.21
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,758.03
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,125.67
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,083.17
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,037.63
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,972.52
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,921.09
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,894.53
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,598.03
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,596.78
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,013.30
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,007.35
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,395.02
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,375.62
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,077.96
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,068.31
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8,198.81
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8,197.89
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,022.26
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,987.75
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,834.74
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,832.75
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,220.52
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,184.40
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,060.27
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,054.14
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,374.07
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,368.79
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,321.25
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,312.91
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,246.27
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,205.03
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,185.34
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,132.16
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7,443.28
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,775.37
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,381.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,202.37
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,937.52
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,712.94
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,673.83
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,516.08
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,094.27
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,836.79
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,776.01
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,346.32
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,299.59
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,153.15
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,415.42
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,315.37
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6,828.94
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5,044.45
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,615.03
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,956.73
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,850.73
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,777.45
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,648.87
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,561.63
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,498.59
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,247.08
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,244.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,054.75
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,982.65
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,906.09
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,772.34
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,696.98
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9,495.08
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6,774.20
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6,308.56
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,965.67
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,739.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,612.55
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,568.41
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,438.74
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,395.49
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,392.73
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,320.82
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,281.88
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,100.53
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,665.79
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,532.39
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,285.46
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9,768.32
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9,377.74
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4,063.49
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,229.85
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,140.80
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,935.82
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,883.17
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,761.27
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,728.70
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,623.80
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,622.36
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,501.39
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,442.65
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,337.19
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,239.92
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,887.43
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8,441.41
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8,189.39
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	8,188.85
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7,523.17
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7,366.92
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6,905.45
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6,598.56
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6,137.19
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5,600.65
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5,415.74

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.