Gene detail

Detailed information of OS493_024180-T1 in Lophelia pertusa

Genomic Location: scaffold_111:695220...696647
NR annotation: KAJ7378231.1, 54S ribosomal protein L17 mitochondrial [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
Q9NRX2	Large ribosomal subunit protein bL17m OS=Homo sapiens OX=9606 GN=MRPL17 PE=1 SV=1
Q5RCA3	Large ribosomal subunit protein bL17m OS=Pongo abelii OX=9601 GN=MRPL17 PE=2 SV=1
Q3T0L3	Large ribosomal subunit protein bL17m OS=Bos taurus OX=9913 GN=MRPL17 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004864 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01196 all species →	Ribosomal_L17	Ribosomal protein L17	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036373 all species →	Homologous_superfamily	Large ribosomal subunit protein bL17 superfamily	Interproscan
IPR000456 all species →	Family	Large ribosomal subunit protein bL17	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14413 all species →	RIBOSOMAL PROTEIN L17	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:0005762 all species →	Cellular Component	mitochondrial large ribosomal subunit	Interproscan
GO:0015934 all species →	Cellular Component	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
K02879	RP-L17, MRPL17, rplQ; large subunit ribosomal protein L17	-	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_024180-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

109TPM > 0

7Conditions

29.3Max TPM

11.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.32	12.77
polyp at pH7 6	18	17	7.93	12.78
coral polyp · control treatment	16	16	14.90	29.26
coral polyp · oil and dispersant treatment	16	16	11.80	17.22
coral polyp · oil treatment	16	16	16.17	28.70
coral polyp · dispersant treatment	16	16	7.85	16.56
Polyp	10	10	11.09	25.29

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	-	12.77
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.30
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.99
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.65
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.34
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.18
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.97
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.84
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.90
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.82
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.79
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.76
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.46
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.32
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.17
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.71
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.68
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.78
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.76
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.74
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.68
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.46
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.44
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.40
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.34
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.24
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.03
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.75
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.43
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.38
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.37
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.04
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.69
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.29
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.26
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.19
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.75
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.51
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.98
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.47
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.12
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.40
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.26
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.50
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.73
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.65
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.99
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.78
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.13
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.22
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.70
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.46
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.18
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.50
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.54
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.44
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.27
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.92
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.74
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.71
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.94
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.42
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.52
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.82
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.43
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.70
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.23
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.35
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.75
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.58
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.02
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.53
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.84
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.28
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.95
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.74
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.81
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.57
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.56
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.84
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.56
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.02
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.69
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.04
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.46
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.41
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.72
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.26
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.60
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.14
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.34
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.30
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.87
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.88
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.20
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.09
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	25.29
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.39
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	15.17
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	11.28
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.91
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.98
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.65
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.79
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.76
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.66

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.