Gene detail

Detailed information of OS493_013707-T1 in Lophelia pertusa

Genomic Location: scaffold_38:343201...351277
NR annotation: KAJ7385679.1, hypothetical protein OS493_013707 [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
Q28DT7	Polycomb protein eed OS=Xenopus tropicalis OX=8364 GN=eed PE=2 SV=1
Q6AZS2	Polycomb protein eed-B OS=Xenopus laevis OX=8355 GN=eed-b PE=1 SV=2
Q5ZKH3	Polycomb protein EED OS=Gallus gallus OX=9031 GN=EED PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005578 (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
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · 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
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan
IPR051243 all species →	Family	Polycomb group WD repeat-containing protein	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10253 all species →	POLYCOMB PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000122 all species →	Biological Process	negative regulation of transcription by RNA polymerase II	Interproscan
GO:0006342 all species →	Biological Process	heterochromatin formation	Interproscan
GO:0031491 all species →	Molecular Function	nucleosome binding	Interproscan
GO:0035098 all species →	Cellular Component	ESC/E(Z) complex	Interproscan
GO:0005515 all species →	Molecular Function	protein 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
K11462	EED; polycomb protein EED	-	Chromosome and associated proteins	ko03036	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_013707-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

110TPM > 0

7Conditions

38.5Max TPM

12.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.94	26.41
polyp at pH7 6	18	18	16.82	35.19
coral polyp · control treatment	16	16	11.49	27.47
coral polyp · oil and dispersant treatment	16	16	7.21	19.84
coral polyp · oil treatment	16	16	10.11	29.63
coral polyp · dispersant treatment	16	16	9.90	23.38
Polyp	10	10	20.78	38.45

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.41
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.95
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.99
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.27
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.36
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.34
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.96
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.39
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.89
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.68
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.18
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.83
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.77
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.30
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.52
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.12
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.71
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.32
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.19
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.47
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.01
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.40
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.68
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.76
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.69
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.39
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.92
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.97
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.21
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.77
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.67
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.52
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.90
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.37
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.97
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.47
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.05
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.87
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.46
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.83
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.26
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.24
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.66
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.38
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.76
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.27
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.54
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.64
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.50
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.94
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.90
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.84
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.27
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.30
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.16
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.83
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.32
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.21
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.82
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.48
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.35
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.86
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.79
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.70
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.18
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.10
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.15
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.63
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.72
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.62
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.54
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.10
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.91
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.41
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.18
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.38
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.73
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.67
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.25
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.51
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.30
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.38
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.35
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.74
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.21
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.59
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.02
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.13
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.77
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.84
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.67
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.15
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.27
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.16
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.90
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.74
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.40
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	38.45
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	35.95
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	30.54
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	28.59
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.29
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.57
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	14.34
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.92
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	6.18
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.00

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.