Gene detail

Detailed information of OS493_022268-T1 in Lophelia pertusa

Genomic Location: scaffold_90:1206678...1209179
NR annotation: KAJ7330653.1, 60S ribosomal protein L8 [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
Q9V3G1	Large ribosomal subunit protein uL2 OS=Drosophila melanogaster OX=7227 GN=RpL8 PE=1 SV=1
Q6RYS3	Large ribosomal subunit protein uL2 OS=Mamestra brassicae OX=55057 GN=RpL8 PE=2 SV=1
Q95V39	Large ribosomal subunit protein uL2 OS=Spodoptera frugiperda OX=7108 GN=RpL8 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007510 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03947 all species →	Ribosomal_L2_C	Ribosomal Proteins L2, C-terminal domain	Domain	Interproscan
PF00181 all species →	Ribosomal_L2	Ribosomal Proteins L2, RNA binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR022669 all species →	Domain	Large ribosomal subunit protein uL2, C-terminal	Interproscan
IPR002171 all species →	Family	Large ribosomal subunit protein uL2	Interproscan
IPR014726 all species →	Homologous_superfamily	Large ribosomal subunit protein uL2, domain 3	Interproscan
IPR008991 all species →	Homologous_superfamily	Translation protein SH3-like domain superfamily	Interproscan
IPR014722 all species →	Homologous_superfamily	Large ribosomal subunit protein uL2, domain 2	Interproscan
IPR022671 all species →	Conserved_site	Large ribosomal subunit protein uL2, conserved site	Interproscan
IPR022666 all species →	Domain	Large ribosomal subunit protein uL2, RNA-binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13691 all species →	RIBOSOMAL PROTEIN L2	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:0002181 all species →	Biological Process	cytoplasmic translation	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	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
K02938	RP-L8e, RPL8; large subunit ribosomal protein L8e	-	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_022268-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

9,380.5Max TPM

4,971.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5,831.04	6,750.84
polyp at pH7 6	18	18	5,425.16	6,464.04
coral polyp · control treatment	16	16	4,721.63	8,375.45
coral polyp · oil and dispersant treatment	16	16	4,106.31	6,609.06
coral polyp · oil treatment	16	16	5,231.76	8,439.79
coral polyp · dispersant treatment	16	16	3,890.20	9,380.54
Polyp	10	10	5,706.12	6,505.70

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	-	6,750.84
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,722.29
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,600.56
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,544.35
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,428.57
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,343.02
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,176.91
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,079.47
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,072.13
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,064.84
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,359.65
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,277.77
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,125.21
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,112.73
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,088.53
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,080.08
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,075.47
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,056.24
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,464.04
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,413.69
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,874.89
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,812.69
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,712.65
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,667.27
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,547.19
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,530.16
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,522.96
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,482.87
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,293.90
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,259.43
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5,126.97
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,957.61
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,791.83
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,789.10
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,726.75
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,678.87
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8,375.45
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6,035.21
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,778.96
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,578.50
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,487.76
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,339.42
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,279.43
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,353.26
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,122.11
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,990.57
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,953.96
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,667.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,631.93
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,622.76
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,449.47
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,880.24
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6,609.06
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5,084.56
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,764.45
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,499.85
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,271.55
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,121.90
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,949.97
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,938.08
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,864.53
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,850.13
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,797.91
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,623.10
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,492.55
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,423.42
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,284.01
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,125.87
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8,439.79
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7,269.45
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6,757.44
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,722.64
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,457.15
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,104.20
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,024.63
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,903.69
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,710.39
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,608.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,572.22
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,535.95
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,462.77
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,436.85
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,093.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,609.48
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9,380.54
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8,638.57
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4,051.45
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,989.19
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,809.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,750.80
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,332.42
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,326.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,015.79
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,003.84
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,975.37
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,897.98
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,699.56
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,682.86
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,500.36
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,189.37
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6,505.70
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6,501.19
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	6,217.42
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6,003.87
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5,958.26
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5,465.83
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5,415.14
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5,316.24
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4,928.58
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4,748.98

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.