Gene detail

Detailed information of OS493_003462-T1 in Lophelia pertusa

Genomic Location: scaffold_7:1747615...1755743
NR annotation: KAJ7393800.1, Thioredoxin-like protein 1 [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
Q8CDN6	Thioredoxin-like protein 1 OS=Mus musculus OX=10090 GN=Txnl1 PE=1 SV=3
Q920J4	Thioredoxin-like protein 1 OS=Rattus norvegicus OX=10116 GN=Txnl1 PE=1 SV=3
O43396	Thioredoxin-like protein 1 OS=Homo sapiens OX=9606 GN=TXNL1 PE=1 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
PF06201 all species →	PITH	PITH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR010400 all species →	Domain	PITH domain	Interproscan
IPR013766 all species →	Domain	Thioredoxin domain	Interproscan
IPR037047 all species →	Homologous_superfamily	PITH domain superfamily	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan
IPR008979 all species →	Homologous_superfamily	Galactose-binding-like domain superfamily	Interproscan
IPR017937 all species →	Conserved_site	Thioredoxin, conserved site	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0015035 all species →	Molecular Function	protein-disulfide reductase activity	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_003462-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_003462-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

159.8Max TPM

50.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	33.54	54.91
polyp at pH7 6	18	18	39.55	59.98
coral polyp · control treatment	16	16	54.55	88.77
coral polyp · oil and dispersant treatment	16	16	94.31	159.80
coral polyp · oil treatment	16	16	46.29	75.53
coral polyp · dispersant treatment	16	16	44.91	96.07
Polyp	10	10	37.62	91.54

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	-	54.91
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.34
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.36
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.77
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.29
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.11
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.53
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.01
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.73
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.65
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.64
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.38
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.81
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.74
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.52
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.61
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.60
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.98
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.11
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.74
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.40
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.62
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.03
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.55
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.66
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.45
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.22
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.92
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.89
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.87
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.30
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.74
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.99
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.29
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.77
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.75
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.26
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.89
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.11
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.66
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.78
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.54
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.42
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.16
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.63
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.64
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.13
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.86
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.10
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.10
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	159.80
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	140.48
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	139.19
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	114.56
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	107.49
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	102.65
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	94.43
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.64
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	83.04
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.98
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.03
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.32
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.61
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.90
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.37
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.53
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.49
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.12
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.09
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.80
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.08
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.90
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.82
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.09
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.02
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.22
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.28
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.18
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.61
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.44
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	96.07
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	94.07
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.18
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.92
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.39
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.08
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.44
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.74
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.34
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.60
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.46
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.67
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.06
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.79
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.35
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	91.54
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	52.03
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	48.18
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	35.55
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	31.75
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	29.37
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	28.61
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	24.54
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	22.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.57

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.