Gene detail

Detailed information of OS493_001259-T1 in Lophelia pertusa

Genomic Location: scaffold_2:7116546...7137333
NR annotation: KAJ7387907.1, hypothetical protein OS493_001259 [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
Q29RU9	Peroxisomal sarcosine oxidase OS=Bos taurus OX=9913 GN=PIPOX PE=2 SV=2
Q9P0Z9	Peroxisomal sarcosine oxidase OS=Homo sapiens OX=9606 GN=PIPOX PE=1 SV=2
Q9D826	Peroxisomal sarcosine oxidase OS=Mus musculus OX=10090 GN=Pipox PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001714 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01266 all species →	DAO	FAD dependent oxidoreductase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR045170 all species →	Family	MTOX family	Interproscan
IPR006076 all species →	Domain	FAD dependent oxidoreductase	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10961 all species →	PEROXISOMAL SARCOSINE OXIDASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005777 all species →	Cellular Component	peroxisome	Interproscan
GO:0008115 all species →	Molecular Function	sarcosine oxidase activity	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0033514 all species →	Biological Process	L-lysine catabolic process to acetyl-CoA via L-pipecolate	Interproscan
GO:0050031 all species →	Molecular Function	L-pipecolate oxidase activity	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K00306	PIPOX; sarcosine oxidase / L-pipecolate oxidase	EC:1.5.3.1 EC:1.5.3.7	Peroxisome	ko04146	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_001259-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

109TPM > 0

7Conditions

47.0Max TPM

21.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	25.26	38.87
polyp at pH7 6	18	17	25.15	47.02
coral polyp · control treatment	16	16	23.66	37.30
coral polyp · oil and dispersant treatment	16	16	14.40	30.15
coral polyp · oil treatment	16	16	23.00	39.69
coral polyp · dispersant treatment	16	16	19.14	35.22
Polyp	10	10	18.75	42.42

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.87
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.11
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.03
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.12
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.98
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.93
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.69
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.07
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.87
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.84
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.62
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.07
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.96
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.11
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.16
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.84
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.68
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.02
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.67
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.84
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.05
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.96
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.59
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.98
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.23
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.78
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.60
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.46
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.80
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.14
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.48
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.99
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.86
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.29
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.30
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.80
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.88
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.27
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.49
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.81
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.93
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.19
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.71
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.68
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.65
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.26
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.66
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.22
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.07
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.60
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.15
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.87
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.28
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.63
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.01
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.01
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.65
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.22
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.42
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.09
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.29
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.20
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.76
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.94
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.02
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.84
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.69
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.58
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.38
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.09
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.14
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.45
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.19
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.61
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.59
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.11
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.85
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.29
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.56
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.34
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.98
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.22
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.18
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.19
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.22
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.29
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.10
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.46
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.24
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.86
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.94
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.97
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.88
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.07
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.63
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.96
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.99
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	42.42
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	32.28
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	28.60
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	22.61
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	18.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	15.72
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.60
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.14
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.35
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.54

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.