Gene detail

Detailed information of OS493_028700-T1 in Lophelia pertusa

Genomic Location: scaffold_167:850107...853547
NR annotation: KAJ7355031.1, hypothetical protein OS493_028700, partial [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
P9WMV8	Cholesterol oxidase OS=Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh) OX=83331 GN=choD PE=3 SV=1
P9WMV9	Cholesterol oxidase OS=Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) OX=83332 GN=choD PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001043 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00890 all species →	FAD_binding_2	FAD binding domain	Family	Interproscan
PF00732 all species →	GMC_oxred_N	GMC oxidoreductase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR052542 all species →	Family	Cholesterol Oxidase Enzyme	Interproscan
IPR003953 all species →	Domain	FAD-dependent oxidoreductase 2, FAD binding domain	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR000172 all species →	Domain	Glucose-methanol-choline oxidoreductase, N-terminal	Interproscan
IPR017896 all species →	Domain	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR47470 all species →	CHOLESTEROL OXIDASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016614 all species →	Molecular Function	oxidoreductase activity, acting on CH-OH group of donors	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	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_028700-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_028700-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

95TPM > 0

7Conditions

8.9Max TPM

1.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	0.85	1.84
polyp at pH7 6	18	14	0.74	1.85
coral polyp · control treatment	16	16	1.66	6.65
coral polyp · oil and dispersant treatment	16	14	1.97	5.08
coral polyp · oil treatment	16	16	1.10	2.72
coral polyp · dispersant treatment	16	15	4.14	8.94
Polyp	10	5	0.16	0.58

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.84
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.64
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.60
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.60
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.55
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.45
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.13
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.09
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.59
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.58
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.55
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.55
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.53
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.47
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.22
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.85
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.30
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.18
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.18
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.10
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.91
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.85
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.81
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.81
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.79
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.74
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.25
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.22
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.65
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.87
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.75
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.03
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.88
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.34
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.33
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.28
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.09
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.91
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.72
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.66
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.66
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.34
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.28
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.08
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.10
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.01
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.85
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.52
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.42
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.34
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.14
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.93
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.11
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.06
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.93
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.87
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.07
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.72
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.39
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.71
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.48
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.42
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.17
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.16
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.87
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.75
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.74
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.71
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.53
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.51
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.43
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.94
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.35
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.99
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.98
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.96
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.49
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.88
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.43
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.29
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.48
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.08
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.59
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.39
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.13
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.58
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.44
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.36
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.13
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.05
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
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.