Gene detail

Detailed information of OS493_036254-T1 in Lophelia pertusa

Genomic Location: scaffold_356:126650...128896
NR annotation: KAJ7382221.1, thioredoxin 2 [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
Q95108	Thioredoxin, mitochondrial OS=Bos taurus OX=9913 GN=TXN2 PE=1 SV=2
P97493	Thioredoxin, mitochondrial OS=Mus musculus OX=10090 GN=Txn2 PE=1 SV=1
Q99757	Thioredoxin, mitochondrial OS=Homo sapiens OX=9606 GN=TXN2 PE=1 SV=2

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
IPR013766 all species →	Domain	Thioredoxin domain	Interproscan
IPR017937 all species →	Conserved_site	Thioredoxin, conserved site	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43601 all species →	THIOREDOXIN, MITOCHONDRIAL	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005739 all species →	Cellular Component	mitochondrion	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_036254-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_036254-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

108TPM > 0

7Conditions

55.1Max TPM

14.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.68	33.36
polyp at pH7 6	18	17	12.29	32.07
coral polyp · control treatment	16	16	19.57	55.14
coral polyp · oil and dispersant treatment	16	16	14.43	49.63
coral polyp · oil treatment	16	16	16.07	25.60
coral polyp · dispersant treatment	16	16	11.11	22.58
Polyp	10	9	18.36	32.05

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	-	33.36
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.31
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.81
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.74
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.46
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.11
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.92
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.81
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.27
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.43
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.25
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.42
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.03
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.21
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.65
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.15
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.34
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.07
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.09
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.81
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.11
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.71
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.07
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.33
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.05
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.05
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.69
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.02
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.89
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.71
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.04
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.62
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.04
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.14
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.30
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.03
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.41
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.38
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.47
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.10
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.06
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.69
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.03
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.97
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.65
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.78
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.93
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.62
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.63
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.24
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.12
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.99
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.63
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.90
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.26
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.72
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.56
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.31
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.26
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.95
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.79
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.65
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.47
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.33
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.60
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.74
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.39
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.06
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.35
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.89
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.45
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.38
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.58
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.30
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.74
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.65
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.32
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.58
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.83
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.20
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.58
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.30
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.76
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.41
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.80
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.33
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.05
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.85
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.64
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.42
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.02
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.85
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.42
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.90
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.97
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	32.05
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	27.04
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	25.05
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	22.64
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	22.46
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	21.06
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.68
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.61
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.95
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.