Gene detail

Detailed information of OS493_006412-T1 in Lophelia pertusa

Genomic Location: scaffold_13:2971958...2974634
NR annotation: KAJ7393438.1, hypothetical protein OS493_006412 [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
O12947	Protein-S-isoprenylcysteine O-methyltransferase OS=Xenopus laevis OX=8355 GN=icmt PE=1 SV=1
Q9WVM4	Protein-S-isoprenylcysteine O-methyltransferase OS=Rattus norvegicus OX=10116 GN=Icmt PE=2 SV=2
Q9EQK7	Protein-S-isoprenylcysteine O-methyltransferase OS=Mus musculus OX=10090 GN=Icmt PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007311 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04140 all species →	ICMT	Isoprenylcysteine carboxyl methyltransferase (ICMT) family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007269 all species →	Family	Isoprenylcysteine carboxyl methyltransferase	Interproscan
IPR025770 all species →	Family	Protein-S-isoprenylcysteine O-methyltransferase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12714 all species →	PROTEIN-S ISOPRENYLCYSTEINE O-METHYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004671 all species →	Molecular Function	protein C-terminal S-isoprenylcysteine carboxyl O-methyltransferase activity	Interproscan
GO:0006481 all species →	Biological Process	C-terminal protein methylation	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0005783 all species →	Cellular Component	endoplasmic reticulum	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
K00587	ICMT, STE14; protein-S-isoprenylcysteine O-methyltransferase	EC:2.1.1.100	Terpenoid backbone biosynthesis	ko00900	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_006412-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

22.3Max TPM

8.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.74	13.95
polyp at pH7 6	18	18	9.11	14.82
coral polyp · control treatment	16	16	10.60	22.29
coral polyp · oil and dispersant treatment	16	16	8.89	21.77
coral polyp · oil treatment	16	16	10.65	15.19
coral polyp · dispersant treatment	16	16	5.75	9.17
Polyp	10	9	6.38	9.31

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	-	13.95
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.15
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.44
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.50
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.36
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.07
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.06
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.49
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.55
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.76
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.57
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.09
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.75
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.44
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.42
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.28
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.57
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.89
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.82
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.47
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.25
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.19
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.23
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.08
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.21
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.98
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.95
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.76
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.50
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.48
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.15
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.57
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.23
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.79
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.28
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.29
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.58
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.10
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.19
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.87
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.76
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.51
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.25
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.18
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.74
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.62
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.40
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.18
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.81
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.74
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.35
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.77
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.58
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.84
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.18
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.57
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.56
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.84
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.53
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.75
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.59
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.50
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.24
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.24
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.22
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.02
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.87
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.19
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.08
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.70
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.53
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.24
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.49
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.69
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.32
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.88
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.82
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.71
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.40
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.20
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.98
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.28
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.92
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.17
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.39
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.92
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.90
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.84
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.49
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.02
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.79
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.15
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.81
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.74
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.67
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.20
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.00
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.78
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.31
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.05
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.65
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.93
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.91
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.79
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.61
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.11
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.45
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.