Gene detail

Detailed information of OS493_025740-T1 in Lophelia pertusa

Genomic Location: scaffold_128:1008280...1030343
NR annotation: KAJ7383864.1, Histone-arginine methyltransferase carm1 [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
Q9WVG6	Histone-arginine methyltransferase CARM1 OS=Mus musculus OX=10090 GN=Carm1 PE=1 SV=2
Q86X55	Histone-arginine methyltransferase CARM1 OS=Homo sapiens OX=9606 GN=CARM1 PE=1 SV=3
Q4AE70	Histone-arginine methyltransferase CARM1 OS=Rattus norvegicus OX=10116 GN=Carm1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004745 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06325 all species →	PrmA	Ribosomal protein L11 methyltransferase (PrmA)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR025799 all species →	Family	Protein arginine N-methyltransferase	Interproscan
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11006 all species →	PROTEIN ARGININE N-METHYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016274 all species →	Molecular Function	protein-arginine N-methyltransferase activity	Interproscan
GO:0018216 all species →	Biological Process	peptidyl-arginine 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
K05931	CARM1, PRMT4; type I protein arginine methyltransferase	EC:2.1.1.319	Chromosome and associated proteins	ko03036	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_025740-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

53.9Max TPM

16.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.30	21.92
polyp at pH7 6	18	18	13.31	19.92
coral polyp · control treatment	16	16	21.31	43.68
coral polyp · oil and dispersant treatment	16	16	22.15	53.93
coral polyp · oil treatment	16	16	16.39	24.39
coral polyp · dispersant treatment	16	16	20.41	32.48
Polyp	10	9	6.72	15.87

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.92
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.63
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.02
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.63
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.77
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.69
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.99
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.29
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.26
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.38
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.57
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.49
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.26
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.09
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.86
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.05
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.89
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.61
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.92
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.61
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.09
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.40
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.06
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.47
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.41
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.36
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.29
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.11
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.29
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.06
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.56
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.45
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.18
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.50
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.99
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.88
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.68
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.28
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.10
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.67
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.42
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.52
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.23
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.33
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.27
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.89
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.36
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.34
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.34
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.82
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.09
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.70
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.93
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.59
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.84
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.54
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.98
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.68
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.63
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.81
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.67
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.84
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.79
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.68
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.06
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.55
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.35
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.39
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.72
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.38
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.29
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.24
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.90
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.04
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.90
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.16
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.97
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.52
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.37
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.32
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.36
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.64
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.99
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.48
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.27
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.29
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.29
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.39
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.79
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.40
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.37
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.03
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.84
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.67
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.08
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.96
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.74
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.24
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.73
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.87
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.23
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.92
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.46
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.12
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.39
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.53
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.53
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.14
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.