Gene detail

Detailed information of OS493_036040-T1 in Lophelia pertusa

Genomic Location: scaffold_345:103694...105151
NR annotation: KAJ7376218.1, tRNA dimethylallyltransferase [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
Q80UN9	tRNA dimethylallyltransferase OS=Mus musculus OX=10090 GN=Trit1 PE=1 SV=2
Q9H3H1	tRNA dimethylallyltransferase OS=Homo sapiens OX=9606 GN=TRIT1 PE=1 SV=1
Q9ZUX7	tRNA dimethylallyltransferase 2 OS=Arabidopsis thaliana OX=3702 GN=IPT2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006450 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01715 all species →	IPPT	IPP transferase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR039657 all species →	Family	Dimethylallyltransferase	Interproscan
IPR018022 all species →	Family	IPP transferase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11088 all species →	TRNA DIMETHYLALLYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006400 all species →	Biological Process	tRNA modification	Interproscan
GO:0052381 all species →	Molecular Function	tRNA dimethylallyltransferase activity	Interproscan
GO:0008033 all species →	Biological Process	tRNA processing	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
K00791	miaA, TRIT1; tRNA dimethylallyltransferase	EC:2.5.1.75	Transfer RNA biogenesis	ko03016	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_036040-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

7.0Max TPM

1.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	1.43	2.37
polyp at pH7 6	18	18	1.58	2.95
coral polyp · control treatment	16	16	1.97	6.97
coral polyp · oil and dispersant treatment	16	16	1.36	6.63
coral polyp · oil treatment	16	16	1.51	3.78
coral polyp · dispersant treatment	16	16	0.84	2.51
Polyp	10	10	1.42	3.83

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.37
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.20
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.97
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.60
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.42
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.41
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.36
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.27
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.27
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.26
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.25
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.23
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.23
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.15
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.12
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.96
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.94
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.95
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.28
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.93
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.83
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.77
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.75
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.73
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.72
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.56
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.49
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.46
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.33
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.16
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.07
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.06
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.01
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.99
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.97
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.40
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.12
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.40
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.03
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.91
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.72
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.67
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.57
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.27
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.97
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.84
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.80
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.76
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.38
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.63
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.78
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.60
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.49
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.30
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.11
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.99
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.93
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.92
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.84
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.79
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.67
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.66
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.53
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.35
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.78
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.57
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.47
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.06
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.03
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.50
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.48
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.41
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.37
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.29
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.02
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.01
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.87
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.57
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.51
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.29
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.51
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.40
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.36
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.30
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.03
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.91
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.55
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.54
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.54
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.53
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.44
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.34
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.33
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.29
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.17
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.13
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.83
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.20
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.48
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.33
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.31
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.86
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.85
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.55
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.53
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.28

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.