Gene detail

Detailed information of OS493_026952-T1 in Lophelia pertusa

Genomic Location: scaffold_142:705832...716651
NR annotation: KAJ7371308.1, Phytanoyl-CoA dioxygenase domain-containing protein 1 [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
Q5U3U0	Phytanoyl-CoA dioxygenase domain-containing protein 1 OS=Danio rerio OX=7955 GN=phyhd1 PE=2 SV=1
Q0IIB1	Phytanoyl-CoA dioxygenase domain-containing protein 1 OS=Bos taurus OX=9913 GN=PHYHD1 PE=2 SV=1
Q5SRE7	Phytanoyl-CoA dioxygenase domain-containing protein 1 OS=Homo sapiens OX=9606 GN=PHYHD1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004706 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05721 all species →	PhyH	Phytanoyl-CoA dioxygenase (PhyH)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008775 all species →	Family	Phytanoyl-CoA dioxygenase-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20883 all species →	PHYTANOYL-COA DIOXYGENASE DOMAIN CONTAINING 1	Interproscan

Gene Ontology

No Gene Ontology signature was recorded for OS493_026952-T1 in Lophelia pertusa.

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
K00477	PHYH; phytanoyl-CoA hydroxylase	EC:1.14.11.18	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_026952-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

28.9Max TPM

11.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.75	17.24
polyp at pH7 6	18	17	10.92	16.86
coral polyp · control treatment	16	16	14.25	28.91
coral polyp · oil and dispersant treatment	16	16	10.62	23.98
coral polyp · oil treatment	16	16	11.74	26.73
coral polyp · dispersant treatment	16	16	12.79	24.02
Polyp	10	9	7.49	15.56

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.24
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.01
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.38
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.21
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.81
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.36
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.82
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.31
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.12
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.13
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.17
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.16
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.33
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.84
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.01
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.98
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.56
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.02
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.86
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.36
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.62
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.38
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.70
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.36
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.56
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.31
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.80
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.09
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.01
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.95
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.75
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.67
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.30
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.91
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.45
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.45
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.20
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.09
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.33
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.74
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.41
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.63
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.08
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.05
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.52
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.29
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.28
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.16
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.98
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.85
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.07
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.82
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.81
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.60
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.22
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.24
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.86
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.94
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.45
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.92
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.80
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.15
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.13
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.73
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.94
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.92
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.84
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.34
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.83
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.27
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.83
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.43
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.27
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.04
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.18
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.81
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.65
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.96
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.85
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.02
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.02
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.33
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.18
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.79
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.75
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.44
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.52
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.83
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.36
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.11
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.17
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.36
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.20
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.26
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.56
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	11.63
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.77
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.07
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.15
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	7.59
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.51
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.84
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.82
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.