Gene detail

Detailed information of OS493_032119-T1 in Lophelia pertusa

Genomic Location: scaffold_233:425562...438833
NR annotation: KAJ7353844.1, thioredoxin reductase [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
Q99MD6	Thioredoxin reductase 3 OS=Mus musculus OX=10090 GN=Txnrd3 PE=1 SV=3
Q86VQ6	Thioredoxin reductase 3 OS=Homo sapiens OX=9606 GN=TXNRD3 PE=1 SV=4
Q16881	Thioredoxin reductase 1, cytoplasmic OS=Homo sapiens OX=9606 GN=TXNRD1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001656 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02852 all species →	Pyr_redox_dim	Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain	Domain	Interproscan
PF07992 all species →	Pyr_redox_2	Pyridine nucleotide-disulphide oxidoreductase	Domain	Interproscan
PF00462 all species →	Glutaredoxin	Glutaredoxin	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR004099 all species →	Domain	Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain	Interproscan
IPR016156 all species →	Homologous_superfamily	FAD/NAD-linked reductase, dimerisation domain superfamily	Interproscan
IPR023753 all species →	Domain	FAD/NAD(P)-binding domain	Interproscan
IPR002109 all species →	Domain	Glutaredoxin	Interproscan
IPR046952 all species →	Family	Glutathione reductase/thioredoxin reductase-like	Interproscan
IPR011767 all species →	Active_site	Glutaredoxin active site	Interproscan
IPR006338 all species →	Family	Thioredoxin/glutathione reductase selenoprotein	Interproscan
IPR012999 all species →	Active_site	Pyridine nucleotide-disulphide oxidoreductase, class I, active site	Interproscan
IPR011899 all species →	Domain	Glutaredoxin, eukaryotic/virial	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR42737 all species →	GLUTATHIONE REDUCTASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	Interproscan
GO:0004362 all species →	Molecular Function	glutathione-disulfide reductase (NADPH) activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006749 all species →	Biological Process	glutathione metabolic process	Interproscan
GO:0034599 all species →	Biological Process	cellular response to oxidative stress	Interproscan
GO:0045454 all species →	Biological Process	cell redox homeostasis	Interproscan
GO:0004791 all species →	Molecular Function	thioredoxin-disulfide reductase (NADPH) activity	Interproscan
GO:0016668 all species →	Molecular Function	oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor	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
K22182	TXNRD; thioredoxin reductase (NADPH)	EC:1.8.1.9	Hepatocellular carcinoma	ko05225	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_032119-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

190.8Max TPM

56.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	39.42	63.46
polyp at pH7 6	18	18	45.36	63.11
coral polyp · control treatment	16	16	65.26	139.44
coral polyp · oil and dispersant treatment	16	16	85.86	190.76
coral polyp · oil treatment	16	16	62.11	104.58
coral polyp · dispersant treatment	16	16	58.27	172.44
Polyp	10	10	29.30	47.47

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	-	63.46
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.85
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.74
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.35
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.25
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.54
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.58
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.59
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.53
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.57
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.98
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.71
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.71
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.57
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.25
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.81
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.22
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.85
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.11
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.07
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.41
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.24
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.53
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.28
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.17
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.48
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.10
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.65
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.42
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.74
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.58
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.37
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.72
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.03
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.36
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.16
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	139.44
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	89.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.39
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.30
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.17
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.85
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.10
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.76
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.64
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.68
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.15
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.42
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.24
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.15
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.35
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	190.76
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	173.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	152.39
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	103.97
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.03
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.82
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.97
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.14
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.68
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.24
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.94
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.02
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.36
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.15
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.80
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	104.58
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	98.63
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	95.35
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	86.89
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.94
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.85
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.07
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.85
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.91
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.57
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.23
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.52
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.53
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.08
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.88
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.85
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	172.44
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	122.07
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	79.99
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.02
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.41
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.69
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.55
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.27
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.10
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.02
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.71
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.43
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.48
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.02
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.20
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.97
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	47.47
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	47.34
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	35.24
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	29.87
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	28.99
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	27.39
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	26.61
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	24.66
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	12.73
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.68

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.