Gene detail

Detailed information of OS493_024743-T1 in Lophelia pertusa

Genomic Location: scaffold_117:426610...431926
NR annotation: KAJ7378080.1, Queuine tRNA-ribosyltransferase catalytic subunit 1 [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
Q7SYK1	Queuine tRNA-ribosyltransferase catalytic subunit 1 OS=Danio rerio OX=7955 GN=qtrt1 PE=2 SV=1
Q28HC6	Queuine tRNA-ribosyltransferase catalytic subunit 1 OS=Xenopus tropicalis OX=8364 GN=qtrt1 PE=2 SV=2
Q4QQY7	Queuine tRNA-ribosyltransferase catalytic subunit 1 OS=Xenopus laevis OX=8355 GN=qtrt1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003392 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01702 all species →	TGT	Queuine tRNA-ribosyltransferase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002616 all species →	Domain	tRNA-guanine(15) transglycosylase-like	Interproscan
IPR004803 all species →	Family	tRNA-guanine transglycosylase	Interproscan
IPR036511 all species →	Homologous_superfamily	Queuine tRNA-ribosyltransferase-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43530 all species →	QUEUINE TRNA-RIBOSYLTRANSFERASE CATALYTIC SUBUNIT 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006400 all species →	Biological Process	tRNA modification	Interproscan
GO:0016763 all species →	Molecular Function	pentosyltransferase activity	Interproscan
GO:0008479 all species →	Molecular Function	tRNA-guanosine(34) queuine transglycosylase activity	Interproscan
GO:0101030 all species →	Biological Process	tRNA-guanine transglycosylation	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	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
K00777	QTRT1; queuine tRNA-ribosyltransferase catalytic subunit	EC:2.4.2.64	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_024743-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

35.8Max TPM

8.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.98	13.80
polyp at pH7 6	18	18	9.57	17.48
coral polyp · control treatment	16	16	9.65	18.96
coral polyp · oil and dispersant treatment	16	16	7.59	25.60
coral polyp · oil treatment	16	16	9.58	16.94
coral polyp · dispersant treatment	16	16	3.85	11.51
Polyp	10	10	14.82	35.77

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.80
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.18
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.96
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.65
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.93
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.66
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.32
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.29
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.29
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.82
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.52
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.94
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.36
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.07
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.49
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.37
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.63
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.34
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.48
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.45
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.73
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.51
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.02
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.59
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.51
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.48
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.82
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.51
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.80
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.41
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.29
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.81
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.74
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.18
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.19
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.96
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.77
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.25
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.46
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.90
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.70
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.38
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.03
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.85
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.76
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.99
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.82
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.87
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.19
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.42
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.60
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.01
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.05
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.67
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.31
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.83
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.53
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.43
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.63
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.43
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.29
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.13
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.08
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.38
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.28
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.80
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.94
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.37
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.54
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.50
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.81
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.69
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.31
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.24
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.55
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.29
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.12
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.10
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.64
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.56
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.16
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.53
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.51
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.20
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.72
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.19
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.84
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.67
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.45
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.38
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.23
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.10
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.88
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.57
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.35
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.03
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.73
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.71
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	35.77
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	20.65
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	18.13
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.65
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.59
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.98
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.37
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.99
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.80
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.22

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.