Gene detail

Detailed information of OS493_003947-T1 in Lophelia pertusa

Genomic Location: scaffold_8:705511...712245
NR annotation: KAJ7386985.1, hypothetical protein OS493_003947 [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
A9KJR7	Urease accessory protein UreF OS=Lachnoclostridium phytofermentans (strain ATCC 700394 / DSM 18823 / ISDg) OX=357809 GN=ureF PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010572 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01730 all species →	UreF	UreF	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002639 all species →	Family	Urease accessory protein UreF	Interproscan
IPR038277 all species →	Homologous_superfamily	UreF domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR33620 all species →	UREASE ACCESSORY PROTEIN F	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006807 all species →	Biological Process	obsolete nitrogen compound metabolic process	Interproscan
GO:0016151 all species →	Molecular Function	nickel cation 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
K03188	ureF; urease accessory protein	-	Protein processing	-	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_003947-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

18.5Max TPM

6.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.35	10.61
polyp at pH7 6	18	17	5.60	9.02
coral polyp · control treatment	16	16	7.10	11.46
coral polyp · oil and dispersant treatment	16	16	8.15	12.79
coral polyp · oil treatment	16	16	7.17	9.72
coral polyp · dispersant treatment	16	16	7.35	18.50
Polyp	10	10	3.78	5.13

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.61
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.09
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.14
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.43
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.43
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.21
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.74
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.55
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.89
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.81
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.74
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.52
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.27
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.81
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.53
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.39
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.07
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.02
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.41
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.30
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.87
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.59
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.52
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.29
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.26
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.94
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.02
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.60
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.33
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.10
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.78
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.47
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.20
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.46
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.79
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.65
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.54
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.78
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.71
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.41
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.90
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.83
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.83
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.50
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.62
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.30
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.22
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.08
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.79
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.78
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.48
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.11
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.93
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.84
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.28
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.23
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.66
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.63
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.49
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.16
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.05
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.57
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.75
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.72
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.72
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.87
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.81
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.59
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.00
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.95
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.86
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.70
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.27
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.18
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.04
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.87
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.55
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.18
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.12
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.99
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.50
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.28
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.97
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.26
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.14
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.74
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.49
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.25
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.02
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.89
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.85
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.58
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.22
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.75
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.43
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.29
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.13
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.80
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.41
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.28
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.27
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.95
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.62
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.61
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.31
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.46

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.