Gene detail

Detailed information of OS493_020030-T1 in Lophelia pertusa

Genomic Location: scaffold_72:702466...708591
NR annotation: KAJ7331247.1, 60S ribosomal protein L18A [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
Q3T003	Large ribosomal subunit protein eL20 OS=Bos taurus OX=9913 GN=RPL18A PE=1 SV=1
Q02543	Large ribosomal subunit protein eL20 OS=Homo sapiens OX=9606 GN=RPL18A PE=1 SV=2
G1TTY7	Large ribosomal subunit protein eL20 OS=Oryctolagus cuniculus OX=9986 GN=RPL18A PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007316 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01775 all species →	Ribosomal_L18A	Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR028877 all species →	Family	Large ribosomal subunit protein eL20	Interproscan
IPR021138 all species →	Family	Large ribosomal subunit protein eL20, eukaryotes	Interproscan
IPR023573 all species →	Domain	Large ribosomal subunit protein eL20 domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10052 all species →	60S RIBOSOMAL PROTEIN L18A	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
K02882	RP-L18Ae, RPL18A; large subunit ribosomal protein L18Ae	-	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_020030-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

4,804.9Max TPM

3,228.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3,668.08	4,430.25
polyp at pH7 6	18	18	3,671.07	4,478.41
coral polyp · control treatment	16	16	3,016.84	4,067.90
coral polyp · oil and dispersant treatment	16	16	2,682.51	4,126.32
coral polyp · oil treatment	16	16	3,330.49	4,804.94
coral polyp · dispersant treatment	16	16	2,408.74	4,492.14
Polyp	10	10	3,999.39	4,540.41

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,430.25
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,423.78
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,318.98
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,307.21
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,118.43
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4,086.65
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,820.28
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,810.52
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,511.60
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,416.63
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,415.02
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,412.42
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,391.30
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,356.02
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,102.84
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,039.61
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,037.88
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,026.12
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,478.41
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,460.33
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,448.36
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,374.60
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,807.58
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,748.30
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,695.03
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,682.53
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,558.92
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,546.19
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,469.14
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,431.40
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,341.96
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,318.92
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,255.28
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,201.87
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,142.94
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3,117.45
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,067.90
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,066.22
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,623.16
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,546.68
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,526.02
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,349.82
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,271.55
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,993.86
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,923.09
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,835.04
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,748.44
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,525.71
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,495.10
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,424.64
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,042.81
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,829.45
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,126.32
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,584.96
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,965.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,899.88
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,881.74
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,680.25
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,667.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,579.58
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,514.09
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,491.29
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,440.81
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,412.35
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,343.11
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,127.20
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,109.24
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,096.48
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,804.94
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,200.86
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,162.17
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,773.09
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,502.31
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,367.96
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,342.94
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,258.47
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,234.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,149.41
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,019.15
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,005.57
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,799.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,751.84
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,498.76
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,416.93
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4,492.14
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4,416.05
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,721.37
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,585.27
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,480.78
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,414.27
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,168.30
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,165.10
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,122.02
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,099.58
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,067.47
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,919.18
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,870.69
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,861.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,655.08
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,501.20
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4,540.41
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4,314.67
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4,279.30
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4,276.23
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4,272.81
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3,901.48
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3,820.40
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3,791.82
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3,649.98
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3,146.87

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.