Gene detail

Detailed information of OS493_022718-T1 in Lophelia pertusa

Genomic Location: scaffold_96:612434...618232
NR annotation: KAJ7330197.1, 54S ribosomal protein L23, 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
Q16540	Large ribosomal subunit protein uL23m OS=Homo sapiens OX=9606 GN=MRPL23 PE=1 SV=1
Q63750	Large ribosomal subunit protein uL23m OS=Rattus norvegicus OX=10116 GN=Mrpl23 PE=2 SV=1
O35972	Large ribosomal subunit protein uL23m OS=Mus musculus OX=10090 GN=Mrpl23 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007738 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00276 all species →	Ribosomal_L23	Ribosomal protein L23	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan
IPR012678 all species →	Homologous_superfamily	Ribosomal protein uL23/eL15/eS24 core domain superfamily	Interproscan
IPR013025 all species →	Family	Large ribosomal subunit protein uL23-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12059 all species →	RIBOSOMAL PROTEIN L23-RELATED	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: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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K02892	RP-L23, MRPL23, rplW; large subunit ribosomal protein L23	-	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_022718-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

36.0Max TPM

15.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.04	32.52
polyp at pH7 6	18	18	19.17	30.63
coral polyp · control treatment	16	16	16.45	32.59
coral polyp · oil and dispersant treatment	16	16	10.86	36.03
coral polyp · oil treatment	16	16	14.91	21.43
coral polyp · dispersant treatment	16	16	9.42	19.32
Polyp	10	9	18.91	34.37

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	-	32.52
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.36
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.28
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.86
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.80
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.35
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.96
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.23
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.94
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.51
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.20
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.32
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.62
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.29
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.86
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.07
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.53
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.63
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.33
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.99
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.98
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.11
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.52
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.43
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.22
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.83
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.68
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.88
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.78
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.94
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.57
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.48
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.31
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.79
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.52
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.59
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.96
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.52
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.08
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.09
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.63
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.08
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.84
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.65
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.53
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.92
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.89
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.87
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.90
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.03
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.61
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.03
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.61
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.13
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.25
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.35
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.48
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.37
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.21
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.83
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.25
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.78
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.27
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.61
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.43
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.95
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.61
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.72
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.81
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.09
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.06
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.68
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.80
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.72
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.17
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.81
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.67
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.99
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.10
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.02
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.32
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.73
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.67
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.27
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.86
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.35
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.24
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.05
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.79
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.62
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.66
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.97
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.04
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.61
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.31
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.17
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	34.37
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	28.02
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	24.30
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	19.97
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	19.74
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	18.07
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	17.23
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	15.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.18
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.