Gene detail

Detailed information of OS493_000303-T1 in Lophelia pertusa

Genomic Location: scaffold_1:3743549...3745458
NR annotation: KAJ7394489.1, UbiA prenyltransferase 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
Q9Y5Z9	UbiA prenyltransferase domain-containing protein 1 OS=Homo sapiens OX=9606 GN=UBIAD1 PE=1 SV=1
D2HKB0	UbiA prenyltransferase domain-containing protein 1 OS=Ailuropoda melanoleuca OX=9646 GN=UBIAD1 PE=3 SV=1
Q9DC60	UbiA prenyltransferase domain-containing protein 1 OS=Mus musculus OX=10090 GN=Ubiad1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002317 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01040 all species →	UbiA	UbiA prenyltransferase family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000537 all species →	Family	UbiA prenyltransferase family	Interproscan
IPR026046 all species →	Family	UbiA prenyltransferase domain containing protein 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13929 all species →	1,4-DIHYDROXY-2-NAPHTHOATE OCTAPRENYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0016765 all species →	Molecular Function	transferase activity, transferring alkyl or aryl (other than methyl) groups	Interproscan
GO:0004659 all species →	Molecular Function	prenyltransferase activity	Interproscan
GO:0005783 all species →	Cellular Component	endoplasmic reticulum	Interproscan
GO:0009234 all species →	Biological Process	menaquinone biosynthetic process	Interproscan
GO:0030173 all species →	Cellular Component	obsolete integral component of Golgi membrane	Interproscan
GO:0032194 all species →	Biological Process	ubiquinone biosynthetic process via 3,4-dihydroxy-5-polyprenylbenzoate	Interproscan
GO:0042371 all species →	Biological Process	vitamin K 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

No KEGG orthology assignment for OS493_000303-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_000303-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

92TPM > 0

7Conditions

2.9Max TPM

0.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	12	0.43	1.02
polyp at pH7 6	18	10	0.47	2.04
coral polyp · control treatment	16	16	1.23	2.40
coral polyp · oil and dispersant treatment	16	14	1.02	2.17
coral polyp · oil treatment	16	16	1.09	2.88
coral polyp · dispersant treatment	16	16	0.95	1.86
Polyp	10	8	0.64	1.67

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.02
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.00
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.91
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.80
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.76
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.64
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.63
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.61
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.47
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.37
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.32
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.29
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
SRR11359506	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
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.04
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.18
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.93
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.85
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.80
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.79
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.54
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.51
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.46
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.44
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359505	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
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	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
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.40
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.29
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.75
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.71
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.59
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.33
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.28
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.19
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.13
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.04
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.88
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.88
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.82
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.74
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.50
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.17
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.02
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.60
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.50
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.44
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.36
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.25
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.11
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.06
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.70
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.21
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
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.88
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.64
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.95
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.43
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.34
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.17
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.15
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.09
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.66
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.60
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.56
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.52
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.47
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.38
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.29
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.28
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.86
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.47
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.45
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.39
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.08
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.95
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.80
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.79
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.74
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.69
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.68
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.47
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.43
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.20
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.67
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.45
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.05
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.78
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.58
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.56
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.26
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.06
SRR23025712	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.