Gene detail

Detailed information of OS493_015624-T1 in Lophelia pertusa

Genomic Location: scaffold_47:1111601...1114358
NR annotation: KAJ7360522.1, mitochondrial translation [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
Q4V7Q1	Large ribosomal subunit protein mL52 OS=Xenopus laevis OX=8355 GN=mrpl52 PE=2 SV=1
P0C2B7	Large ribosomal subunit protein mL52 OS=Bos taurus OX=9913 GN=MRPL52 PE=1 SV=1
Q86TS9	Large ribosomal subunit protein mL52 OS=Homo sapiens OX=9606 GN=MRPL52 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009807 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18699 all species →	MRPL52	Mitoribosomal protein mL52	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR034596 all species →	Family	Large ribosomal subunit protein mL52	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR34090 all species →	39S RIBOSOMAL PROTEIN L52, MITOCHONDRIAL	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005762 all species →	Cellular Component	mitochondrial large ribosomal subunit	Interproscan
GO:0006412 all species →	Biological Process	translation	Interproscan
GO:0032543 all species →	Biological Process	mitochondrial 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

No KEGG orthology assignment for OS493_015624-T1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_015624-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

24.8Max TPM

9.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.98	13.67
polyp at pH7 6	18	18	11.84	23.73
coral polyp · control treatment	16	16	9.78	15.64
coral polyp · oil and dispersant treatment	16	16	10.00	14.43
coral polyp · oil treatment	16	16	9.48	14.95
coral polyp · dispersant treatment	16	16	5.90	13.07
Polyp	10	9	11.83	24.79

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.67
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.22
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.88
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.61
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.50
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.32
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.25
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.97
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.44
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.14
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.73
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.49
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.40
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.37
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.94
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.44
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.11
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.24
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.73
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.26
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.87
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.26
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.18
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.35
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.63
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.30
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.24
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.65
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.91
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.43
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.20
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.89
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.83
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.63
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.64
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.16
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.71
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.65
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.99
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.94
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.81
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.35
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.99
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.58
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.07
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.79
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.38
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.63
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.45
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.38
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.43
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.60
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.17
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.01
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.73
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.40
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.38
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.84
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.41
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.24
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.17
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.03
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.11
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.57
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.31
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.64
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.95
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.51
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.82
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.30
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.94
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.31
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.19
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.17
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.09
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.89
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.30
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.22
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.79
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.54
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.44
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.16
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.07
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.04
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.34
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.24
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.03
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.66
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.18
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.07
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.74
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.37
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.80
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.02
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.92
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.90
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.26
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.75
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	24.79
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	24.02
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	13.57
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.55
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	12.38
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.65
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.13
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.50
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.67
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.