Gene detail

Detailed information of OS493_017377-T1 in Lophelia pertusa

Genomic Location: scaffold_55:1734733...1740626
NR annotation: KAJ7391680.1, 60S ribosomal protein L10A [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
Q5E9E6	Large ribosomal subunit protein uL1 OS=Bos taurus OX=9913 GN=RPL10A PE=2 SV=3
P62906	Large ribosomal subunit protein uL1 OS=Homo sapiens OX=9606 GN=RPL10A PE=1 SV=2
P62907	Large ribosomal subunit protein uL1 OS=Rattus norvegicus OX=10116 GN=Rpl10a PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006666 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00687 all species →	Ribosomal_L1	Ribosomal protein L1p/L10e family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR023674 all species →	Homologous_superfamily	Ribosomal protein uL1-like	Interproscan
IPR002143 all species →	Family	Large ribosomal subunit protein uL1	Interproscan
IPR023673 all species →	Conserved_site	Large ribosomal subunit protein uL1, conserved site	Interproscan
IPR028364 all species →	Family	Ribosomal protein uL1/ribosomal biogenesis protein	Interproscan
IPR016095 all species →	Homologous_superfamily	Large ribosomal subunit protein uL1, 3-layer alpha/beta-sandwich domain	Interproscan
IPR050257 all species →	Family	Eukaryotic ribosomal RNA-processing and assembly protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23105 all species →	RIBOSOMAL PROTEIN L7AE FAMILY MEMBER	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:0006412 all species →	Biological Process	translation	Interproscan
GO:0015934 all species →	Cellular Component	large ribosomal subunit	Interproscan
GO:0000470 all species →	Biological Process	maturation of LSU-rRNA	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
K02865	RP-L10Ae, RPL10A; large subunit ribosomal protein L10Ae	-	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_017377-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

3,167.1Max TPM

1,902.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2,248.33	3,167.07
polyp at pH7 6	18	18	2,145.93	2,735.08
coral polyp · control treatment	16	16	1,716.24	3,026.96
coral polyp · oil and dispersant treatment	16	16	1,478.27	2,218.69
coral polyp · oil treatment	16	16	1,881.06	2,995.54
coral polyp · dispersant treatment	16	16	1,422.07	3,145.67
Polyp	10	10	2,618.42	3,027.06

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,167.07
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3,092.92
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,794.71
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,780.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,476.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,452.65
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,327.82
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,287.09
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,050.07
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,044.71
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,030.84
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,968.86
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,961.71
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,951.51
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,943.27
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,940.95
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,603.84
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,594.99
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,735.08
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,559.97
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,386.82
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,364.68
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,272.18
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,259.51
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,232.84
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,203.58
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,059.47
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,050.01
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,025.79
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,014.66
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,013.67
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,010.76
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,900.09
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,887.69
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,829.02
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,821.03
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3,026.96
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,222.27
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,188.11
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,135.48
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,058.58
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,797.72
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,773.68
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,703.84
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,620.50
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,591.55
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,528.13
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,355.21
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,296.42
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,227.15
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,003.71
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	930.58
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,218.69
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2,067.72
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,757.53
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,560.34
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,544.74
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,466.07
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,461.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,440.53
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,398.50
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,383.09
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,287.47
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,253.26
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,239.35
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,223.61
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,191.75
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,158.12
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,995.54
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,581.76
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,397.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,017.59
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,973.89
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,965.77
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,911.04
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,821.23
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,789.86
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,745.47
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,698.98
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,689.99
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,528.93
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,381.32
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,368.25
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,229.39
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3,145.67
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,937.65
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,586.62
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,507.68
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,498.96
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,333.37
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,319.22
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,278.18
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,201.26
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,103.80
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,056.10
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,038.45
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	989.63
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	973.98
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	965.28
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	817.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3,027.06
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2,941.95
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2,883.60
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2,817.19
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2,572.92
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2,525.05
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2,519.87
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2,470.09
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2,249.79
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2,176.67

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.