Gene detail

Detailed information of OS493_029240-T1 in Lophelia pertusa

Genomic Location: scaffold_176:123904...125007
NR annotation: KAJ7383275.1, 60S ribosomal protein L28 [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
Q9VZS5	Large ribosomal subunit protein eL28 OS=Drosophila melanogaster OX=7227 GN=RpL28 PE=1 SV=1
O14069	Large ribosomal subunit protein eL28 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=rpl44 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008265 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01778 all species →	Ribosomal_L28e	Ribosomal L28e protein family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029004 all species →	Domain	Ribosomal eL28/Mak16	Interproscan
IPR002672 all species →	Family	Large ribosomal subunit protein eL28	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10544 all species →	60S RIBOSOMAL PROTEIN L28	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
K02903	RP-L28e, RPL28; large subunit ribosomal protein L28e	-	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_029240-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

6,631.1Max TPM

3,315.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3,978.03	5,090.85
polyp at pH7 6	18	18	3,758.44	4,564.45
coral polyp · control treatment	16	16	2,839.49	4,707.79
coral polyp · oil and dispersant treatment	16	16	2,543.69	3,965.81
coral polyp · oil treatment	16	16	3,355.33	5,895.16
coral polyp · dispersant treatment	16	16	2,424.40	6,631.07
Polyp	10	10	4,679.42	6,532.02

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	-	5,090.85
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,960.05
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,284.08
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,280.57
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,091.20
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,080.12
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,072.08
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,066.09
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,052.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,052.06
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,882.35
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,832.90
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,819.91
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,799.12
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,360.17
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,349.01
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,275.72
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,256.11
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,564.45
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,528.52
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,498.55
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,454.38
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,114.50
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,034.60
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,912.18
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,908.31
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,617.67
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,586.62
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,543.10
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,521.70
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,352.46
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,282.79
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,279.83
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,276.74
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,100.06
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,075.40
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,707.79
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,956.19
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,924.33
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,623.34
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,311.13
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,107.01
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,980.39
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,855.72
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,639.16
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,462.79
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,365.60
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,315.64
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,236.46
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,941.74
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,637.13
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,367.37
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,965.81
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,455.77
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,871.44
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,682.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,643.10
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,630.18
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,630.12
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,595.56
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,540.72
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,355.39
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,337.33
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,167.93
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,144.16
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,043.16
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,903.03
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,733.33
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,895.16
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,626.35
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,312.84
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,710.99
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,546.76
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,523.68
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,086.35
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,071.22
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,995.75
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,977.40
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,969.84
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,923.93
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,913.01
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,559.55
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,489.99
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,082.43
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6,631.07
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4,836.32
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,495.25
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,429.55
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,328.51
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,129.66
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,028.53
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,015.30
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,013.33
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,005.42
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,850.87
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,775.62
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,704.88
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,588.47
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,561.75
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,395.79
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	6,532.02
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6,516.79
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6,247.49
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6,047.52
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4,216.61
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3,847.87
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3,823.67
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3,745.73
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2,978.03
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2,838.43

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.