Gene detail

Detailed information of OS493_006194-T1 in Lophelia pertusa

Genomic Location: scaffold_13:892344...897016
NR annotation: KAJ7393225.1, 28S ribosomal protein S22, 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
Q9CXW2	Small ribosomal subunit protein mS22 OS=Mus musculus OX=10090 GN=Mrps22 PE=1 SV=1
P82649	Small ribosomal subunit protein mS22 OS=Bos taurus OX=9913 GN=MRPS22 PE=1 SV=2
P82650	Small ribosomal subunit protein mS22 OS=Homo sapiens OX=9606 GN=MRPS22 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006750 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10245 all species →	MRP-S22	Mitochondrial 28S ribosomal protein S22	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019374 all species →	Family	Small ribosomal subunit protein mS22	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13071 all species →	MITOCHONDRIAL 28S RIBOSOMAL PROTEIN S22	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005763 all species →	Cellular Component	mitochondrial small 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

No KEGG orthology assignment for OS493_006194-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_006194-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

23.7Max TPM

11.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.22	18.56
polyp at pH7 6	18	18	12.10	20.82
coral polyp · control treatment	16	16	13.15	21.34
coral polyp · oil and dispersant treatment	16	16	7.94	23.09
coral polyp · oil treatment	16	16	12.94	19.73
coral polyp · dispersant treatment	16	16	7.91	16.74
Polyp	10	9	14.57	23.66

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.56
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.28
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.81
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.01
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.15
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.41
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.77
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.57
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.67
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.91
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.06
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.06
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.84
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.41
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.65
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.18
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.01
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.58
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.82
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.80
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.06
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.76
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.82
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.81
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.51
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.42
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.11
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.01
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.37
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.83
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.25
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.92
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.24
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.18
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.91
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.34
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.85
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.80
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.52
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.22
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.20
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.87
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.82
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.61
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.12
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.14
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.61
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.24
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.41
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.07
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.09
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.07
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.87
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.03
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.39
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.99
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.96
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.93
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.81
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.37
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.34
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.30
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.12
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.91
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.85
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.93
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.73
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.55
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.37
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.02
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.72
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.02
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.80
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.48
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.89
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.69
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.44
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.53
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.10
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.08
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.02
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.53
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.74
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.84
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.38
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.35
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.99
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.78
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.65
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.25
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.94
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.04
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.94
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.54
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.04
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.43
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.60
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	23.66
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	23.26
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	21.23
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	16.78
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	16.73
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.95
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.32
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	10.42
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.33
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.