Gene detail

Detailed information of OS493_011180-T1 in Lophelia pertusa

Genomic Location: scaffold_28:1319079...1319543
NR annotation: KAJ7373575.1, hypothetical protein OS493_011180 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000365 (this species only)
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR050844 all species →	Family	Coatomer complex subunit	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19876 all species →	COATOMER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0006888 all species →	Biological Process	endoplasmic reticulum to Golgi vesicle-mediated transport	Interproscan
GO:0006890 all species →	Biological Process	retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum	Interproscan
GO:0006891 all species →	Biological Process	intra-Golgi vesicle-mediated transport	Interproscan
GO:0030126 all species →	Cellular Component	COPI vesicle coat	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_011180-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_011180-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

103TPM > 0

7Conditions

8.0Max TPM

1.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	1.80	3.82
polyp at pH7 6	18	17	1.99	3.74
coral polyp · control treatment	16	16	1.69	4.04
coral polyp · oil and dispersant treatment	16	12	0.42	1.39
coral polyp · oil treatment	16	16	1.40	3.02
coral polyp · dispersant treatment	16	14	0.77	2.92
Polyp	10	10	3.97	7.99

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	-	3.82
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.99
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.52
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.24
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.18
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.98
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.92
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.80
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.73
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.56
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.56
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.51
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.44
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.31
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.16
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.86
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.78
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.74
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.24
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.21
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.83
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.72
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.63
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.46
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.03
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.97
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.84
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.79
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.58
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.49
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.23
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.10
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.98
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.93
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.04
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.16
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.88
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.37
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.31
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.64
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.55
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.31
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.19
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.17
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.10
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.04
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.88
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.56
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.39
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.31
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.98
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.98
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.54
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.34
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.31
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.27
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.25
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.20
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.14
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.07
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
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.02
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.23
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.05
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.01
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.86
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.77
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.65
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.54
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.51
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.48
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.16
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.87
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.65
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.46
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.13
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.03
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.77
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.15
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.01
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.81
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.47
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.44
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.42
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.30
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.28
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.19
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.99
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.79
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.09
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.99
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.95
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.78
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.54
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.67
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.80
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.12

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.