Gene detail

Detailed information of OS493_007534-T1 in Lophelia pertusa

Genomic Location: scaffold_16:3496362...3500070
NR annotation: KAJ7374428.1, hypothetical protein OS493_007534 [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
P13255	Glycine N-methyltransferase OS=Rattus norvegicus OX=10116 GN=Gnmt PE=1 SV=2
Q29555	Glycine N-methyltransferase OS=Sus scrofa OX=9823 GN=GNMT PE=1 SV=2
Q14749	Glycine N-methyltransferase OS=Homo sapiens OX=9606 GN=GNMT PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004166 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13847 all species →	Methyltransf_31	Methyltransferase domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR014369 all species →	Family	Glycine/Sarcosine N-methyltransferase	Interproscan
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan
IPR025714 all species →	Domain	Methyltransferase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16458 all species →	GLYCINE N-METHYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0017174 all species →	Molecular Function	glycine N-methyltransferase activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006111 all species →	Biological Process	regulation of gluconeogenesis	Interproscan
GO:0006730 all species →	Biological Process	one-carbon metabolic process	Interproscan
GO:0016594 all species →	Molecular Function	glycine binding	Interproscan
GO:0042802 all species →	Molecular Function	identical protein binding	Interproscan
GO:0046498 all species →	Biological Process	S-adenosylhomocysteine metabolic process	Interproscan
GO:0046500 all species →	Biological Process	S-adenosylmethionine metabolic process	Interproscan
GO:0051289 all species →	Biological Process	protein homotetramerization	Interproscan
GO:1901052 all species →	Biological Process	sarcosine metabolic process	Interproscan
GO:1904047 all species →	Molecular Function	S-adenosyl-L-methionine binding	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
K00552	GNMT; glycine N-methyltransferase	EC:2.1.1.20	Cysteine and methionine metabolism	ko00270	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_007534-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

1,384.9Max TPM

273.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	138.00	209.05
polyp at pH7 6	18	18	198.97	308.31
coral polyp · control treatment	16	16	239.35	592.46
coral polyp · oil and dispersant treatment	16	16	523.45	889.97
coral polyp · oil treatment	16	16	211.40	366.69
coral polyp · dispersant treatment	16	16	440.22	1,384.90
Polyp	10	10	137.94	237.80

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	209.05
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	208.78
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	176.26
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	170.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	162.94
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	158.91
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	158.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	151.38
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	146.30
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	130.03
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	111.56
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	109.79
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	109.22
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	109.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	96.81
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	96.61
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	94.84
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	84.23
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	308.31
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	307.69
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	258.04
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	239.60
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	234.01
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	232.92
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	231.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	213.55
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	211.42
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	205.06
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	193.68
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	189.68
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	177.95
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	176.09
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	116.37
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	111.62
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	87.08
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	86.96
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	592.46
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	490.77
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	420.63
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	387.55
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	320.91
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	314.25
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	198.93
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	161.53
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	142.59
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	140.76
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	132.30
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	129.81
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	125.95
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	105.50
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	94.75
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.95
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	889.97
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	845.04
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	727.76
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	708.06
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	631.55
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	620.33
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	543.44
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	517.60
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	513.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	501.70
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	474.59
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	469.93
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	341.38
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	251.75
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	172.87
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	166.19
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	366.69
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	355.90
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	326.44
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	278.44
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	272.92
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	236.03
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	231.57
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	219.47
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	200.41
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	174.49
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	164.73
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	157.48
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	145.09
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	136.78
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.13
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.83
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,384.90
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	733.01
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	625.40
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	515.88
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	479.25
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	466.82
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	446.93
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	396.78
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	376.44
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	376.40
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	343.41
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	257.07
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	248.12
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	208.37
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	145.26
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.51
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	237.80
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	209.20
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	203.97
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	187.27
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	156.38
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	114.82
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	109.29
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	66.31
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	58.10
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	36.24

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.