Gene detail

Detailed information of OS493_019578-T1 in Lophelia pertusa

Genomic Location: scaffold_69:30236...33970
NR annotation: KAJ7378887.1, ribosomal protein S5 [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
Q5E988	Small ribosomal subunit protein uS7 OS=Bos taurus OX=9913 GN=RPS5 PE=2 SV=3
P46782	Small ribosomal subunit protein uS7 OS=Homo sapiens OX=9606 GN=RPS5 PE=1 SV=4
G1TFM5	Small ribosomal subunit protein uS7 OS=Oryctolagus cuniculus OX=9986 GN=RPS5 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006057 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00177 all species →	Ribosomal_S7	Ribosomal protein S7p/S5e	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000235 all species →	Family	Small ribosomal subunit protein uS7	Interproscan
IPR005716 all species →	Family	Ribosomal protein uS7, eukaryotic/archaeal	Interproscan
IPR020606 all species →	Conserved_site	Small ribosomal subunit protein uS7, conserved site	Interproscan
IPR036823 all species →	Homologous_superfamily	Small ribosomal subunit protein uS7 domain superfamily	Interproscan
IPR023798 all species →	Domain	Small ribosomal subunit protein uS7 domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11205 all species →	RIBOSOMAL PROTEIN S7	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006412 all species →	Biological Process	translation	Interproscan
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0015935 all species →	Cellular Component	small ribosomal subunit	Interproscan
GO:0000028 all species →	Biological Process	ribosomal small subunit assembly	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0019843 all species →	Molecular Function	rRNA binding	Interproscan
GO:0022627 all species →	Cellular Component	cytosolic small ribosomal subunit	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	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
K02989	RP-S5e, RPS5; small subunit ribosomal protein S5e	-	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_019578-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

2,795.0Max TPM

1,636.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	1,981.82	2,260.12
polyp at pH7 6	18	18	1,840.32	2,197.25
coral polyp · control treatment	16	16	1,430.41	2,332.26
coral polyp · oil and dispersant treatment	16	16	1,261.19	1,969.80
coral polyp · oil treatment	16	16	1,661.84	2,556.36
coral polyp · dispersant treatment	16	16	1,168.33	2,795.01
Polyp	10	10	2,291.65	2,785.55

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	-	2,260.12
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,257.17
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,253.96
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,190.02
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,185.12
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,184.02
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,183.25
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,169.56
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,157.18
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2,027.20
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,864.70
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,859.65
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,844.12
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,828.56
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,637.19
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,624.91
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,620.20
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,525.75
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,197.25
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,180.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,104.63
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2,100.12
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,997.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,988.16
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,887.33
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,878.65
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,845.33
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,843.56
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,819.96
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,818.70
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,699.57
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,658.59
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,652.72
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,496.65
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,488.97
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,467.53
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,332.26
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2,101.00
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,919.41
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,628.38
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,617.41
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,564.51
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,511.09
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,457.23
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,392.52
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,250.02
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,199.89
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,154.30
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,132.76
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	992.10
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	950.25
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	683.46
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,969.80
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,695.15
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,523.72
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,437.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,406.43
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,361.79
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,351.50
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,294.63
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,279.52
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,190.48
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,067.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,022.06
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	996.52
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	866.09
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	864.71
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	851.42
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,556.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,276.31
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,184.33
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2,019.67
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,978.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,758.03
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,708.39
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,583.07
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,528.32
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,511.02
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,484.84
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,417.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,381.01
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,126.98
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,077.30
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	998.73
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,795.01
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2,251.54
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,211.87
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,172.18
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,140.34
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,091.12
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,016.16
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	976.20
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	965.27
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	960.08
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	959.90
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	920.17
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	865.40
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	845.98
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	806.17
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	715.96
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2,785.55
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2,662.66
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2,495.64
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2,362.08
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2,316.01
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2,196.29
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2,191.58
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2,159.63
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1,899.24
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1,847.84

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.