Gene detail

Detailed information of OS493_008645-T1 in Lophelia pertusa

Genomic Location: scaffold_20:2550245...2553887
NR annotation: KAJ7386510.1, Peptide-N(4)-(N-acetyl-beta- glucosaminyl)asparagine amidase [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
Q5WNE3	Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase OS=Caenorhabditis briggsae OX=6238 GN=png-1 PE=3 SV=1
Q9TW67	Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase OS=Caenorhabditis elegans OX=6239 GN=png-1 PE=1 SV=1
O96952	Thioredoxin OS=Geodia cydonium OX=6047 GN=THIO PE=3 SV=1

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
IPR017937 all species →	Conserved_site	Thioredoxin, conserved site	Interproscan
IPR013766 all species →	Domain	Thioredoxin domain	Interproscan
IPR005746 all species →	Family	Thioredoxin	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	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_008645-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

106TPM > 0

7Conditions

184.3Max TPM

25.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	21.78	69.66
polyp at pH7 6	18	16	21.74	72.99
coral polyp · control treatment	16	16	34.13	181.98
coral polyp · oil and dispersant treatment	16	15	41.33	184.33
coral polyp · oil treatment	16	16	24.80	65.48
coral polyp · dispersant treatment	16	16	16.55	128.30
Polyp	10	9	17.18	45.56

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	69.66
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.48
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.71
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.63
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.38
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.86
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.31
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.12
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.54
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.09
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.67
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.75
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.93
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.02
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.88
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.49
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.83
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.71
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.99
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.36
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.23
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.99
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.09
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.83
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.81
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.14
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.10
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.86
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.29
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.16
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.97
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.32
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.25
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.89
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	181.98
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	104.72
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	94.14
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.96
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.50
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.18
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.12
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.18
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.90
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.78
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.37
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.64
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.61
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.30
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.24
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.39
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	184.33
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.95
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.30
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.19
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.62
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.82
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.87
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.30
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.25
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.33
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.39
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.01
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.48
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.43
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.48
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.46
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.08
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.47
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.51
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.72
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.45
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.30
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.28
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.99
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.97
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.82
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.57
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.03
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	128.30
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.11
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.70
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.99
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.08
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.02
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.23
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.14
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.84
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.05
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.37
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.94
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.75
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.46
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.83
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	45.56
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	36.80
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	26.01
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.24
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.46
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.64
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	11.15
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.59
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.31
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.