Gene detail

Detailed information of OS493_028921-T1 in Lophelia pertusa

Genomic Location: scaffold_171:468093...476223
NR annotation: KAJ7377478.1, hypothetical protein OS493_028921 [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
Q9UI43	rRNA methyltransferase 2, mitochondrial OS=Homo sapiens OX=9606 GN=MRM2 PE=1 SV=1
Q9CPY0	rRNA methyltransferase 2, mitochondrial OS=Mus musculus OX=10090 GN=Mrm2 PE=1 SV=1
Q9VDT6	rRNA methyltransferase 2, mitochondrial OS=Drosophila melanogaster OX=7227 GN=Mrm2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007548 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01728 all species →	FtsJ	FtsJ-like methyltransferase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan
IPR015507 all species →	Family	Ribosomal RNA large subunit methyltransferase E	Interproscan
IPR050082 all species →	Family	Ribosomal RNA large subunit methyltransferase RlmE	Interproscan
IPR002877 all species →	Domain	Ribosomal RNA methyltransferase, FtsJ domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10920 all species →	RIBOSOMAL RNA METHYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001510 all species →	Biological Process	RNA methylation	Interproscan
GO:0008168 all species →	Molecular Function	methyltransferase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0008173 all species →	Molecular Function	RNA methyltransferase activity	Interproscan
GO:0008650 all species →	Molecular Function	rRNA (uridine-2'-O-)-methyltransferase activity	Interproscan
GO:0032259 all species →	Biological Process	methylation	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
K02427	rlmE, rrmJ, ftsJ; 23S rRNA (uridine2552-2'-O)-methyltransferase	EC:2.1.1.166	Ribosome biogenesis	ko03009	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_028921-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

55.2Max TPM

18.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.21	26.87
polyp at pH7 6	18	18	18.43	29.00
coral polyp · control treatment	16	16	20.61	35.64
coral polyp · oil and dispersant treatment	16	16	15.37	22.49
coral polyp · oil treatment	16	16	23.13	31.57
coral polyp · dispersant treatment	16	16	12.35	28.81
Polyp	10	10	26.16	55.18

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.87
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.53
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.25
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.10
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.28
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.79
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.93
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.18
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.29
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.10
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.97
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.95
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.13
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.66
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.54
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.62
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.57
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.97
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.62
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.76
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.98
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.13
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.42
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.44
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.68
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.45
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.69
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.51
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.38
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.93
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.66
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.20
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.64
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.80
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.39
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.92
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.88
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.01
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.98
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.71
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.75
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.05
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.22
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.12
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.78
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.77
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.19
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.56
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.49
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.84
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.99
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.61
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.27
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.70
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.65
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.34
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.26
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.82
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.92
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.41
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.64
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.32
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.72
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.91
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.57
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.81
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.98
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.16
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.79
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.51
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.09
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.47
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.04
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.86
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.87
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.86
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.55
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.43
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.81
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.76
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.84
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.41
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.69
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.45
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.12
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.95
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.33
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.18
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.34
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.88
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.62
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.86
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.86
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.49
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	55.18
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	42.07
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	26.49
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	26.29
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	25.76
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	25.74
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	18.56
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	17.08
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	12.40
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.01

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.