Gene detail

Detailed information of OS493_017550-T1 in Lophelia pertusa

Genomic Location: scaffold_56:1652032...1661838
NR annotation: KAJ7385173.1, 54S ribosomal protein L22, 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
Q3SZX5	Large ribosomal subunit protein uL22m OS=Bos taurus OX=9913 GN=MRPL22 PE=1 SV=1
Q8BU88	Large ribosomal subunit protein uL22m OS=Mus musculus OX=10090 GN=Mrpl22 PE=1 SV=1
Q5RAH3	Large ribosomal subunit protein uL22m OS=Pongo abelii OX=9601 GN=MRPL22 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007978 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00237 all species →	Ribosomal_L22	Ribosomal protein L22p/L17e	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001063 all species →	Family	Large ribosomal subunit protein uL22	Interproscan
IPR036394 all species →	Homologous_superfamily	Ribosomal protein uL22 superfamily	Interproscan
IPR047867 all species →	Family	Large ribosomal subunit protein uL22, bacterial/organelle-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13501 all species →	CHLOROPLAST 50S RIBOSOMAL PROTEIN L22-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: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
K02890	RP-L22, MRPL22, rplV; large subunit ribosomal protein L22	-	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_017550-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

98.9Max TPM

24.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	31.08	47.17
polyp at pH7 6	18	18	38.81	98.86
coral polyp · control treatment	16	16	18.66	35.84
coral polyp · oil and dispersant treatment	16	16	13.43	35.30
coral polyp · oil treatment	16	16	18.51	29.48
coral polyp · dispersant treatment	16	16	9.24	17.00
Polyp	10	10	42.69	87.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.37
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.70
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.53
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.54
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.38
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.90
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.84
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.02
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.98
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.91
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.01
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.43
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.05
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.99
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.68
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.68
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.31
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	98.86
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	78.77
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.02
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.60
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.53
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.83
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.46
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.79
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.63
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.44
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.21
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.03
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.83
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.10
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.60
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.42
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.19
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.33
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.84
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.43
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.53
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.97
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.89
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.13
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.63
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.95
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.53
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.72
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.69
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.50
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.80
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.30
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.30
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.09
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.68
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.69
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.81
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.29
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.28
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.48
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.24
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.24
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.80
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.92
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.70
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.03
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.89
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.39
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.48
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.76
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.61
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.36
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.04
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.03
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.30
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.94
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.79
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.34
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.36
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.15
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.55
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.17
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.82
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.42
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.89
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.26
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.06
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.28
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.14
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.42
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.21
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.39
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.01
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.69
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.31
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.63
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.02
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.87
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	87.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	55.43
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	48.07
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	45.11
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	43.87
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	43.83
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	37.90
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	29.21
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	18.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	17.72

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.