Gene detail

Detailed information of OS493_002884-T1 in Lophelia pertusa

Genomic Location: scaffold_6:1754878...1766713
NR annotation: KAJ7340157.1, Leucine carboxyl methyltransferase 1 [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
Q9UIC8	Leucine carboxyl methyltransferase 1 OS=Homo sapiens OX=9606 GN=LCMT1 PE=1 SV=2
Q3T0H0	Leucine carboxyl methyltransferase 1 OS=Bos taurus OX=9913 GN=LCMT1 PE=2 SV=1
Q6P4Z6	Leucine carboxyl methyltransferase 1 OS=Rattus norvegicus OX=10116 GN=Lcmt1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001733 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04072 all species →	LCM	Leucine carboxyl methyltransferase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan
IPR007213 all species →	Family	Methyltransferase Ppm1/Ppm2/Tcmp	Interproscan
IPR016651 all species →	Family	Leucine carboxyl methyltransferase 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13600 all species →	LEUCINE CARBOXYL METHYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008168 all species →	Molecular Function	methyltransferase activity	Interproscan
GO:0032259 all species →	Biological Process	methylation	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006481 all species →	Biological Process	C-terminal protein methylation	Interproscan
GO:0018423 all species →	Molecular Function	protein C-terminal leucine carboxyl O-methyltransferase activity	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
K18203	LCMT1; [phosphatase 2A protein]-leucine-carboxy methyltransferase	EC:2.1.1.233	Protein phosphatases and associated proteins	ko01009	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_002884-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

56.0Max TPM

8.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.57	12.22
polyp at pH7 6	18	18	9.04	16.20
coral polyp · control treatment	16	16	11.18	45.43
coral polyp · oil and dispersant treatment	16	16	8.98	55.97
coral polyp · oil treatment	16	16	9.72	15.78
coral polyp · dispersant treatment	16	16	6.34	12.96
Polyp	10	10	8.17	14.88

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	-	12.22
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.82
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.45
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.44
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.93
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.81
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.47
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.43
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.88
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.36
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.74
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.08
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.69
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.63
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.58
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.22
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.09
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.20
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.15
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.25
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.03
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.59
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.43
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.34
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.05
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.93
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.78
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.66
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.12
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.88
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.37
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.37
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.52
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.12
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.43
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.36
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.75
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.56
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.28
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.20
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.19
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.08
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.34
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.25
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.29
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.25
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.20
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.51
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.95
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.21
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.97
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.24
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.07
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.50
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.26
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.83
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.28
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.97
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.82
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.81
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.72
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.66
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.23
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.94
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.07
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.38
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.78
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.66
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.97
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.44
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.30
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.66
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.56
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.07
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.94
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.67
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.91
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.70
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.91
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.22
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.96
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.35
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.21
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.45
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.74
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.97
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.66
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.32
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.28
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.04
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.96
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.90
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.52
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.10
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.93
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.98
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	14.88
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	12.60
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.49
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.42
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.26
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.66
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.09
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.04
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.88
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.38

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.