Gene detail

Detailed information of OS493_014449-T1 in Lophelia pertusa

Genomic Location: scaffold_41:843320...846144
NR annotation: KAJ7361808.1, 60S ribosomal protein L19 [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
P36241	Large ribosomal subunit protein eL19 OS=Drosophila melanogaster OX=7227 GN=RpL19 PE=1 SV=2
Q90YU8	Large ribosomal subunit protein eL19 OS=Ictalurus punctatus OX=7998 GN=rpl19 PE=2 SV=1
Q6P5L3	Large ribosomal subunit protein eL19 OS=Danio rerio OX=7955 GN=rpl19 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007611 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01280 all species →	Ribosomal_L19e	Ribosomal protein L19e	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039547 all species →	Family	Large ribosomal subunit protein eL19	Interproscan
IPR023638 all species →	Conserved_site	Large ribosomal subunit protein eL19, conserved site	Interproscan
IPR000196 all species →	Domain	Large ribosomal subunit protein eL19 domain	Interproscan
IPR033935 all species →	Domain	Large ribosomal subunit protein eL19, eukaryotic	Interproscan
IPR015972 all species →	Homologous_superfamily	Large ribosomal subunit protein eL19, domain 1	Interproscan
IPR035970 all species →	Homologous_superfamily	Large ribosomal subunit protein eL19 superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10722 all species →	60S RIBOSOMAL PROTEIN L19	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0022625 all species →	Cellular Component	cytosolic large ribosomal subunit	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0006412 all species →	Biological Process	translation	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
K02885	RP-L19e, RPL19; large subunit ribosomal protein L19e	-	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_014449-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

13,466.2Max TPM

5,741.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7,132.45	8,259.53
polyp at pH7 6	18	18	7,442.81	10,646.06
coral polyp · control treatment	16	16	4,528.14	8,395.91
coral polyp · oil and dispersant treatment	16	16	4,039.93	7,569.74
coral polyp · oil treatment	16	16	5,166.94	11,625.46
coral polyp · dispersant treatment	16	16	4,156.43	13,466.22
Polyp	10	10	8,299.25	12,853.37

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	-	8,259.53
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8,110.99
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,971.34
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,886.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,834.05
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,795.41
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,793.31
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,715.23
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,294.73
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,278.43
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7,021.98
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,970.44
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,909.50
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,888.55
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,091.83
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6,091.04
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,249.64
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5,222.06
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10,646.06
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10,570.46
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9,509.82
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9,390.83
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,616.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,615.36
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,492.34
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,484.61
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,388.17
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7,314.06
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,855.81
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,844.91
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,828.15
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,661.17
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,069.95
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6,064.34
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,857.42
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4,761.09
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8,395.91
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6,848.85
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,468.30
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5,201.29
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,979.77
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,968.46
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,623.26
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,357.82
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,215.58
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4,079.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,677.94
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,539.64
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,426.86
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,302.15
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,744.64
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,620.72
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7,569.74
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5,441.32
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5,317.92
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,140.65
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,126.15
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,122.54
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4,072.96
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,799.94
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,719.85
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,582.68
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,544.77
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,307.76
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,147.99
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3,139.14
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,998.38
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,607.01
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11,625.46
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6,724.80
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6,612.48
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6,410.21
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,153.29
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5,030.49
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,839.23
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,592.27
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,456.99
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,156.77
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,124.44
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,077.54
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4,035.36
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,824.37
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,666.43
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3,340.99
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13,466.22
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13,136.89
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,615.68
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,315.80
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,213.17
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,067.84
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,998.22
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,942.85
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,870.85
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,870.74
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,800.32
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,770.32
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,544.92
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,514.87
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,234.09
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,140.02
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	12,853.37
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	12,193.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11,507.33
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10,251.55
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	7,133.07
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6,062.41
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6,052.14
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5,860.65
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5,676.93
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5,402.00

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.