Gene detail

Detailed information of OS493_029485-T1 in Lophelia pertusa

Genomic Location: scaffold_180:222180...226019
NR annotation: KAJ7325622.1, Thioredoxin reductase 2, mitochondrial [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
Q9NNW7	Thioredoxin reductase 2, mitochondrial OS=Homo sapiens OX=9606 GN=TXNRD2 PE=1 SV=3
Q9Z0J5	Thioredoxin reductase 2, mitochondrial OS=Rattus norvegicus OX=10116 GN=Txnrd2 PE=1 SV=3
Q9JLT4	Thioredoxin reductase 2, mitochondrial OS=Mus musculus OX=10090 GN=Txnrd2 PE=1 SV=4

Gene family

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

Pfam domain

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

InterPro

InterPro term	Type	Description	Source
IPR016156 all species →	Homologous_superfamily	FAD/NAD-linked reductase, dimerisation domain superfamily	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR023753 all species →	Domain	FAD/NAD(P)-binding domain	Interproscan
IPR004099 all species →	Domain	Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain	Interproscan
IPR046952 all species →	Family	Glutathione reductase/thioredoxin reductase-like	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

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
K02535	lpxC; UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase	EC:3.5.1.108	Lipopolysaccharide biosynthesis proteins	ko01005	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_029485-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

82.0Max TPM

31.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	29.99	49.14
polyp at pH7 6	18	18	29.75	41.77
coral polyp · control treatment	16	16	38.98	65.86
coral polyp · oil and dispersant treatment	16	16	30.46	54.00
coral polyp · oil treatment	16	16	38.97	80.38
coral polyp · dispersant treatment	16	16	20.99	40.48
Polyp	10	10	30.74	81.99

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	-	49.14
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.02
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.38
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.07
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.85
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.76
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.27
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.08
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.36
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.07
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.38
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.28
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.59
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.69
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.69
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.00
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.17
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.04
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.77
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.03
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.75
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.56
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.85
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.98
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.09
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.06
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.77
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.98
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.28
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.71
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.93
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.78
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.70
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.15
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.98
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.19
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.86
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.28
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.23
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.59
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.95
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.75
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.44
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.48
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.73
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.05
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.63
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.63
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.85
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.52
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.37
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.35
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.58
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.20
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.83
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.52
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.83
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.79
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.01
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.02
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.91
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.44
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.68
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.07
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.07
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.48
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.98
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.38
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.98
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.22
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.12
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.26
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.28
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.60
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.86
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.82
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.38
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.07
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.43
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.63
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.32
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.22
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.93
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.48
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.59
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.09
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.60
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.01
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.32
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.57
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.69
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.24
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.35
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.27
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.94
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.77
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.15
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.83
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	81.99
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	33.02
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	31.37
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	30.60
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	28.17
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.84
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	26.81
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	26.80
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	12.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.56

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.