Gene detail

Detailed information of OS493_012667-T1 in Lophelia pertusa

Genomic Location: scaffold_33:1860573...1869001
NR annotation: KAJ7379907.1, hypothetical protein OS493_012667 [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
P80457	Xanthine dehydrogenase/oxidase OS=Bos taurus OX=9913 GN=XDH PE=1 SV=4
P47989	Xanthine dehydrogenase/oxidase OS=Homo sapiens OX=9606 GN=XDH PE=1 SV=4
Q9MYW6	Xanthine dehydrogenase/oxidase OS=Felis catus OX=9685 GN=XDH PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001294 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00111 all species →	Fer2	2Fe-2S iron-sulfur cluster binding domain	Domain	Interproscan
PF01799 all species →	Fer2_2	[2Fe-2S] binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006058 all species →	Binding_site	2Fe-2S ferredoxin, iron-sulphur binding site	Interproscan
IPR001041 all species →	Domain	2Fe-2S ferredoxin-type iron-sulfur binding domain	Interproscan
IPR016167 all species →	Homologous_superfamily	FAD-binding, type PCMH, subdomain 1	Interproscan
IPR036010 all species →	Homologous_superfamily	2Fe-2S ferredoxin-like superfamily	Interproscan
IPR036884 all species →	Homologous_superfamily	[2Fe-2S]-binding domain superfamily	Interproscan
IPR036318 all species →	Homologous_superfamily	FAD-binding, type PCMH-like superfamily	Interproscan
IPR016208 all species →	Family	Aldehyde oxidase/xanthine dehydrogenase-like	Interproscan
IPR002888 all species →	Domain	[2Fe-2S]-binding	Interproscan
IPR012675 all species →	Homologous_superfamily	Beta-grasp domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45444 all species →	XANTHINE DEHYDROGENASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0051537 all species →	Molecular Function	2 iron, 2 sulfur cluster binding	Interproscan
GO:0051536 all species →	Molecular Function	iron-sulfur cluster binding	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	Interproscan
GO:0005506 all species →	Molecular Function	iron ion binding	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0046872 all species →	Molecular Function	metal ion 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K03518	coxS; aerobic carbon-monoxide dehydrogenase small subunit	EC:1.2.5.3	Enzymes with EC numbers	-	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_012667-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

102TPM > 0

7Conditions

16.0Max TPM

4.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	4.61	8.29
polyp at pH7 6	18	15	3.91	8.27
coral polyp · control treatment	16	16	6.09	15.98
coral polyp · oil and dispersant treatment	16	16	6.26	14.03
coral polyp · oil treatment	16	15	5.26	12.68
coral polyp · dispersant treatment	16	15	5.42	13.45
Polyp	10	8	1.62	3.58

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.29
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.21
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.59
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.49
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.31
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.13
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.77
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.31
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.42
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.37
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.77
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.60
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.96
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.89
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.72
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.39
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.27
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.91
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.14
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.29
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.11
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.03
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.34
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.10
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.96
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.86
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.83
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.71
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.73
SRR11359500	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
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.98
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.19
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.76
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.57
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.09
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.97
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.50
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.43
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.32
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.43
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.25
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.84
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.65
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.37
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.17
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.03
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.20
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.42
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.59
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.50
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.07
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.32
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.27
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.99
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.93
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.79
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.27
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.21
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.14
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.78
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.67
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.68
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.60
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.41
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.37
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.16
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.27
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.75
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.78
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.31
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.17
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.15
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.92
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.90
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.48
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.26
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.45
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.95
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.36
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.33
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.19
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.28
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.45
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.43
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.54
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.08
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.42
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.32
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.76
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.07
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.02
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.58
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.05
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.75
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.99
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.61
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.60
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.45
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.18
SRR7746667	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.