Gene detail

Detailed information of OS493_023529-T1 in Lophelia pertusa

Genomic Location: scaffold_104:1277114...1282229
NR annotation: KAJ7384200.1, hypothetical protein OS493_023529 [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
Q5E9K3	Pyridoxine-5'-phosphate oxidase OS=Bos taurus OX=9913 GN=PNPO PE=2 SV=1
Q9NVS9	Pyridoxine-5'-phosphate oxidase OS=Homo sapiens OX=9606 GN=PNPO PE=1 SV=1
Q91XF0	Pyridoxine-5'-phosphate oxidase OS=Mus musculus OX=10090 GN=Pnpo PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003704 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01243 all species →	Putative_PNPOx	Pyridoxamine 5'-phosphate oxidase	Domain	Interproscan
PF10590 all species →	PNP_phzG_C	Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011576 all species →	Domain	Pyridoxamine 5'-phosphate oxidase, putative	Interproscan
IPR019740 all species →	Conserved_site	Pyridoxamine 5'-phosphate oxidase, conserved site	Interproscan
IPR012349 all species →	Homologous_superfamily	FMN-binding split barrel	Interproscan
IPR000659 all species →	Family	Pyridoxamine 5'-phosphate oxidase	Interproscan
IPR019576 all species →	Domain	Pyridoxine 5'-phosphate oxidase, dimerisation, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10851 all species →	PYRIDOXINE-5-PHOSPHATE OXIDASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016638 all species →	Molecular Function	oxidoreductase activity, acting on the CH-NH2 group of donors	Interproscan
GO:0004733 all species →	Molecular Function	pyridoxamine phosphate oxidase activity	Interproscan
GO:0008615 all species →	Biological Process	pyridoxine biosynthetic process	Interproscan
GO:0010181 all species →	Molecular Function	FMN binding	Interproscan
GO:0042823 all species →	Biological Process	pyridoxal phosphate biosynthetic process	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
K00275	pdxH, PNPO; pyridoxamine 5'-phosphate oxidase	EC:1.4.3.5	Vitamin B6 metabolism	ko00750	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_023529-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

108TPM > 0

7Conditions

10.7Max TPM

4.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.34	6.30
polyp at pH7 6	18	16	4.36	6.59
coral polyp · control treatment	16	16	4.72	9.34
coral polyp · oil and dispersant treatment	16	16	3.48	9.00
coral polyp · oil treatment	16	16	4.72	10.71
coral polyp · dispersant treatment	16	16	3.22	5.85
Polyp	10	10	4.17	7.41

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.86
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.54
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.30
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.04
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.99
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.68
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.43
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.07
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.99
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.86
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.85
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.83
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.69
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.55
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.40
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.31
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.39
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.59
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.14
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.03
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.64
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.54
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.37
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.21
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.20
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.86
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.55
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.25
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.21
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.12
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.95
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.47
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.32
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
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.34
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.40
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.91
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.22
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.93
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.30
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.20
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.12
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.01
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.57
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.19
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.12
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.41
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.27
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.25
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.22
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.05
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.54
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.25
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.67
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.62
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.47
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.31
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.02
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.95
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.82
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.65
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.60
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.93
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.81
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.71
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.43
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.62
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.58
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.69
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.77
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.48
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.16
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.15
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.74
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.46
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.42
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.58
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.51
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.19
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.07
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.85
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.20
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.97
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.62
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.04
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.95
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.75
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.46
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.21
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.94
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.33
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.25
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.24
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.59
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.61
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.56
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.41
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.86
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.72
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.66
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.62
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.67
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.25
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.80
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.68

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.