Gene detail

Detailed information of OS493_008644-T1 in Lophelia pertusa

Genomic Location: scaffold_20:2538190...2547655
NR annotation: KAJ7386509.1, glycerol ether metabolic process [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
O96952	Thioredoxin OS=Geodia cydonium OX=6047 GN=THIO PE=3 SV=1
Q7KQL8	Thioredoxin 1 OS=Plasmodium falciparum (isolate 3D7) OX=36329 GN=TRX1 PE=1 SV=1
O14463	Thioredoxin-1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=trx1 PE=3 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000679 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00085 all species →	Thioredoxin	Thioredoxin	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005746 all species →	Family	Thioredoxin	Interproscan
IPR017937 all species →	Conserved_site	Thioredoxin, conserved site	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan
IPR013766 all species →	Domain	Thioredoxin domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46115 all species →	THIOREDOXIN-LIKE PROTEIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0015035 all species →	Molecular Function	protein-disulfide reductase activity	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
K03671	TXN, trxA; thioredoxin	-	Chaperones and folding catalysts	ko03110	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_008644-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

310.3Max TPM

124.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	124.70	310.35
polyp at pH7 6	18	18	131.79	221.31
coral polyp · control treatment	16	16	128.46	172.32
coral polyp · oil and dispersant treatment	16	16	110.46	191.16
coral polyp · oil treatment	16	16	122.87	199.65
coral polyp · dispersant treatment	16	16	118.57	205.24
Polyp	10	10	140.37	246.72

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	-	310.35
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	303.54
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	154.48
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	148.06
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	128.84
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	123.33
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	114.30
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	111.03
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	98.31
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	97.38
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	91.63
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	88.19
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	83.97
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	83.35
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	83.01
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	82.29
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	76.99
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.58
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	221.31
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	207.02
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	170.79
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	155.51
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	146.53
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	145.31
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	136.58
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	128.25
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	128.06
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	123.55
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	112.01
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	108.06
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	106.41
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	105.42
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	102.51
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	101.43
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	88.27
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	85.12
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	172.32
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	161.83
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	156.94
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	151.23
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	148.64
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	147.97
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	144.73
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	135.02
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	134.64
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	134.56
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	127.56
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	121.41
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	119.99
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.21
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.74
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.57
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	191.16
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	168.02
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	163.42
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	139.53
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	135.71
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	133.78
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	128.56
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	128.53
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	104.32
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	97.24
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	89.48
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.17
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.74
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.33
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.21
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.14
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	199.65
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	169.56
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	159.36
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	144.58
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	142.71
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	133.60
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	125.27
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	120.28
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	117.99
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	116.06
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	115.89
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	108.97
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	103.91
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	99.27
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.28
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.60
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	205.24
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	177.28
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	169.79
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	141.46
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	139.95
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	131.41
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	129.91
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	123.52
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	121.37
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	118.34
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	104.13
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	90.86
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	82.25
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.97
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.93
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.75
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	246.72
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	195.68
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	156.54
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	146.72
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	140.92
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	127.47
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	120.39
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	94.80
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	89.55
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	84.87

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.