Gene detail

Detailed information of OS493_011188-T1 in Lophelia pertusa

Genomic Location: scaffold_28:1386680...1389544
NR annotation: KAJ7373583.1, hypothetical protein OS493_011188 [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
Q2KXW3	Kynurenine formamidase OS=Bordetella avium (strain 197N) OX=360910 GN=kynB PE=3 SV=1
A6V681	Kynurenine formamidase OS=Pseudomonas paraeruginosa (strain DSM 24068 / PA7) OX=381754 GN=kynB PE=3 SV=1
A9AGH3	Kynurenine formamidase OS=Burkholderia multivorans (strain ATCC 17616 / 249) OX=395019 GN=kynB PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001409 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04199 all species →	Cyclase	Putative cyclase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007325 all species →	Family	Kynurenine formamidase/cyclase-like	Interproscan
IPR037175 all species →	Homologous_superfamily	Kynurenine formamidase superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31118 all species →	CYCLASE-LIKE PROTEIN 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004061 all species →	Molecular Function	arylformamidase activity	Interproscan
GO:0019441 all species →	Biological Process	tryptophan catabolic process to kynurenine	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_011188-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_011188-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

105TPM > 0

7Conditions

66.6Max TPM

13.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	14.78	35.19
polyp at pH7 6	18	16	14.20	23.71
coral polyp · control treatment	16	16	11.33	29.16
coral polyp · oil and dispersant treatment	16	15	13.21	48.74
coral polyp · oil treatment	16	16	16.96	66.60
coral polyp · dispersant treatment	16	16	13.90	45.44
Polyp	10	9	12.64	27.52

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.19
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.92
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.68
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.55
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.38
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.09
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.86
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.79
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.57
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.12
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.72
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.29
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.02
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.78
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.37
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.94
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.79
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.71
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.60
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.57
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.01
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.44
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.22
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.99
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.20
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.56
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.80
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.81
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.20
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.94
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.80
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.71
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	29.16
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.47
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.31
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.92
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.71
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.47
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.41
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.23
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.49
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.47
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.91
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.72
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.71
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.56
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.82
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.92
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.74
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.21
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.76
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.66
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.49
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.66
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.75
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.92
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.43
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.31
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.30
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.40
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.41
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.40
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.93
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.60
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.80
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.10
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.64
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.95
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.26
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.11
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.22
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.76
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.32
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.88
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.34
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.21
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.62
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.96
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.62
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.77
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.16
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.90
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.74
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.01
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.90
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.54
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.83
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.78
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.96
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.68
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.51
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.45
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.99
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.70
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	27.52
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	25.52
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	17.76
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	17.73
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.97
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.95
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.46
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.50
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.