Gene detail

Detailed information of OS493_009684-T1 in Lophelia pertusa

Genomic Location: scaffold_23:1591709...1601676
NR annotation: KAJ7363529.1, hypothetical protein OS493_009684 [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
Q68XG4	Glutaredoxin 1 OS=Rickettsia typhi (strain ATCC VR-144 / Wilmington) OX=257363 GN=grxC1 PE=3 SV=1
Q9HU55	Glutaredoxin OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=grx PE=3 SV=1
P68688	Glutaredoxin 1 OS=Escherichia coli (strain K12) OX=83333 GN=grxA PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002373 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00610 all species →	DEP	Domain found in Dishevelled, Egl-10, and Pleckstrin (DEP)	Domain	Interproscan
PF00462 all species →	Glutaredoxin	Glutaredoxin	Domain	Interproscan
PF04784 all species →	DUF547	Protein of unknown function, DUF547	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan
IPR000591 all species →	Domain	DEP domain	Interproscan
IPR051548 all species →	Family	Glutaredoxin-like Electron Transport	Interproscan
IPR014025 all species →	Domain	Glutaredoxin subgroup	Interproscan
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR002109 all species →	Domain	Glutaredoxin	Interproscan
IPR006869 all species →	Domain	Domain of unknown function DUF547	Interproscan
IPR036390 all species →	Homologous_superfamily	Winged helix DNA-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR34386 all species →	GLUTAREDOXIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0035556 all species →	Biological Process	intracellular signal transduction	Interproscan
GO:0009055 all species →	Molecular Function	electron transfer activity	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

No KEGG orthology assignment for OS493_009684-T1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_009684-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

556.6Max TPM

89.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	24.57	36.19
polyp at pH7 6	18	18	28.41	56.66
coral polyp · control treatment	16	16	91.74	163.31
coral polyp · oil and dispersant treatment	16	16	207.42	474.05
coral polyp · oil treatment	16	16	73.04	146.31
coral polyp · dispersant treatment	16	16	156.73	556.63
Polyp	10	10	37.90	106.43

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.19
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.02
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.91
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.68
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.59
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.01
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.38
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.19
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.67
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.95
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.66
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.56
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.69
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.43
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.50
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.47
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.63
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.65
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.66
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.56
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.64
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.38
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.94
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.38
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.48
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.27
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.89
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.22
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.12
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.31
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.86
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.02
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.94
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.34
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.37
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.96
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	163.31
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	152.34
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	133.04
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	113.19
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	109.25
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	108.22
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	103.01
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.46
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	89.61
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.01
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.23
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	81.95
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.36
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.55
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.63
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.73
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	474.05
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	453.04
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	375.16
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	316.77
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	248.26
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	244.58
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	224.23
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	194.15
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	155.56
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	115.51
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	114.74
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	105.48
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	104.34
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.88
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.05
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.99
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	146.31
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	132.02
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	120.67
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	96.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.21
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	88.57
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	86.49
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.29
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.46
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.48
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.44
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.12
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.31
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.45
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.66
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.06
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	556.63
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	327.24
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	320.43
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	243.62
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	197.74
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	157.21
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	125.19
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	120.54
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	110.80
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	104.89
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	67.91
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.54
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.84
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.57
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.39
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.15
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	106.43
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	59.50
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	58.21
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	28.50
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	27.97
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	26.55
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	24.94
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	24.75
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	13.13
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.05

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.