Gene detail

Detailed information of OS493_032898-T1 in Lophelia pertusa

Genomic Location: scaffold_251:320502...321784
NR annotation: KAJ7352959.1, tRNA (guanine(37)-N1)-methyltransferase [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
F6VSS6	tRNA (guanine(37)-N(1))-methyltransferase OS=Xenopus tropicalis OX=8364 GN=trmt5 PE=3 SV=1
Q9D0C4	tRNA (guanine(37)-N(1))-methyltransferase OS=Mus musculus OX=10090 GN=Trmt5 PE=1 SV=1
F4NUJ6	tRNA (guanine(37)-N(1))-methyltransferase OS=Batrachochytrium dendrobatidis (strain JAM81 / FGSC 10211) OX=684364 GN=TRM5 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006308 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02475 all species →	Met_10	Met-10+ like-protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR030382 all species →	Domain	SAM-dependent methyltransferase TRM5/TYW2-type	Interproscan
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23245 all species →	TRNA METHYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0002939 all species →	Biological Process	tRNA N1-guanine methylation	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005759 all species →	Cellular Component	mitochondrial matrix	Interproscan
GO:0008175 all species →	Molecular Function	tRNA methyltransferase activity	Interproscan
GO:0009019 all species →	Molecular Function	obsolete tRNA (guanine-N1-)-methyltransferase activity	Interproscan
GO:0030488 all species →	Biological Process	tRNA methylation	Interproscan
GO:0070901 all species →	Biological Process	mitochondrial tRNA 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

No KEGG orthology assignment for OS493_032898-T1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_032898-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

104TPM > 0

7Conditions

23.4Max TPM

2.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.50	3.75
polyp at pH7 6	18	17	2.25	4.54
coral polyp · control treatment	16	16	2.29	3.69
coral polyp · oil and dispersant treatment	16	15	1.67	3.39
coral polyp · oil treatment	16	16	2.62	6.34
coral polyp · dispersant treatment	16	13	0.75	1.75
Polyp	10	9	7.51	23.44

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.75
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.54
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.39
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.14
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.06
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.03
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.82
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.81
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.49
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.12
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.04
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.96
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.78
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.73
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.67
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.32
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.30
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.54
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.08
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.79
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.75
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.73
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.56
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.54
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.54
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.45
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.37
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.28
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.19
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.82
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.78
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.59
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.39
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.18
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.69
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.68
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.54
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.49
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.46
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.71
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.30
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.95
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.90
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.79
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.76
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.53
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.51
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.22
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.39
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.88
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.80
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.76
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.18
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.17
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.14
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.75
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.37
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.33
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.05
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.89
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.60
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.39
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.34
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.28
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.62
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.60
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.37
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.89
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.53
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.21
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.15
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.71
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.66
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.64
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.59
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.28
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.01
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.96
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.75
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.67
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.40
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.25
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.84
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.82
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.75
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.68
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.67
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.63
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.59
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.54
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.40
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	23.44
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	22.22
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.70
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.27
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.69
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.63
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.31
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.48
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.31
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.