Gene detail

Detailed information of OS493_006046-T1 in Lophelia pertusa

Genomic Location: scaffold_12:4023145...4025174
NR annotation: KAJ7339639.1, 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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008869 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08561 all species →	Ribosomal_L37	Mitochondrial ribosomal protein L37	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013870 all species →	Family	Large ribosomal subunit protein mL54	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR28595 all species →	39S RIBOSOMAL PROTEIN L54, 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

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
K17435	MRPL54; large subunit ribosomal protein L54	-	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_006046-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

108TPM > 0

7Conditions

32.4Max TPM

8.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.30	12.87
polyp at pH7 6	18	17	10.69	32.41
coral polyp · control treatment	16	16	8.45	21.09
coral polyp · oil and dispersant treatment	16	16	6.29	17.11
coral polyp · oil treatment	16	16	7.92	12.87
coral polyp · dispersant treatment	16	16	4.06	11.59
Polyp	10	9	11.76	24.23

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	-	12.87
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.07
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.77
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.73
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.61
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.13
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.78
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.54
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.39
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.21
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.58
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.27
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.10
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.73
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.27
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.95
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.51
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.92
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.41
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.45
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.32
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.03
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.54
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.77
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.71
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.38
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.07
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.58
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.86
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.71
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.53
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.08
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.34
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.87
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.75
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.09
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.67
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.44
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.20
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.26
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.87
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.02
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.65
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.54
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.56
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.86
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.86
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.59
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.36
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.07
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.11
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.47
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.68
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.75
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.37
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.63
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.31
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.02
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.83
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.69
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.27
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.87
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.42
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.78
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.41
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.87
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.01
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.66
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.59
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.79
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.39
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.83
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.21
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.68
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.99
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.03
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.90
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.81
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.22
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.12
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.59
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.22
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.46
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.50
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.21
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.01
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.54
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.19
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.17
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.07
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.87
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.55
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.54
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.50
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.04
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.50
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	24.23
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	22.18
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.41
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.25
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	11.55
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.97
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.30
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.68
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.