Gene detail

Detailed information of OS493_011527-T1 in Lophelia pertusa

Genomic Location: scaffold_29:2154741...2155648
NR annotation: KAJ7363245.1, tRNA methyltransferase 10 [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
Q8C1Z8	tRNA methyltransferase 10 homolog A OS=Mus musculus OX=10090 GN=Trmt10a PE=2 SV=2
Q4KLI2	tRNA methyltransferase 10 homolog A OS=Rattus norvegicus OX=10116 GN=Trmt10a PE=1 SV=1
Q8TBZ6	tRNA methyltransferase 10 homolog A OS=Homo sapiens OX=9606 GN=TRMT10A PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002140 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01746 all species →	tRNA_m1G_MT	tRNA (Guanine-1)-methyltransferase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR038459 all species →	Homologous_superfamily	tRNA methyltransferase TRM10-type domain superfamily	Interproscan
IPR016009 all species →	Domain	tRNA methyltransferase TRMD/TRM10-type domain	Interproscan
IPR028564 all species →	Domain	tRNA methyltransferase TRM10-type domain	Interproscan
IPR007356 all species →	Family	tRNA (guanine-N1-)-methyltransferase, eukaryotic	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13563 all species →	TRNA (GUANINE-9-) METHYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000049 all species →	Molecular Function	tRNA binding	Interproscan
GO:0002939 all species →	Biological Process	tRNA N1-guanine methylation	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005654 all species →	Cellular Component	nucleoplasm	Interproscan
GO:0009019 all species →	Molecular Function	obsolete tRNA (guanine-N1-)-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

No KEGG orthology assignment for OS493_011527-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_011527-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

18.0Max TPM

4.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.76	10.25
polyp at pH7 6	18	17	6.38	18.03
coral polyp · control treatment	16	16	3.66	11.33
coral polyp · oil and dispersant treatment	16	16	2.35	6.51
coral polyp · oil treatment	16	16	2.80	5.12
coral polyp · dispersant treatment	16	16	1.50	4.53
Polyp	10	10	7.75	12.68

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	-	10.25
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.75
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.67
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.07
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.17
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.10
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.95
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.18
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.58
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.24
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.20
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.27
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.57
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.93
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.43
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.75
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.65
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.03
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.81
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.80
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.60
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.81
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.68
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.56
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.27
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.92
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.33
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.43
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.38
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.33
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.87
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.49
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.33
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.28
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.33
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.19
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.18
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.66
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.12
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.07
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.97
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.68
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.27
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.91
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.83
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.40
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.31
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.51
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.76
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.10
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.78
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.35
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.33
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.28
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.08
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.99
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.98
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.89
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.87
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.26
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.09
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.38
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.12
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.27
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.68
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.49
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.20
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.14
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.61
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.55
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.36
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.30
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.28
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.04
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.04
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.90
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.77
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.53
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.16
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.14
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.11
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.79
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.77
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.60
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.23
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.91
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.85
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.85
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.75
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.63
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.46
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.35
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	12.68
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.38
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.35
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	8.73
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.74
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.15
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.83
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.82
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.62
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.21

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.