Gene detail

Detailed information of OS493_022256-T1 in Lophelia pertusa

Genomic Location: scaffold_90:1067433...1074463
NR annotation: KAJ7330641.1, putative rRNA-processing protein EBP2 [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
Q9I8J6	Probable rRNA-processing protein EBP2 OS=Xenopus laevis OX=8355 GN=ebna1bp2 PE=2 SV=1
Q9D903	Probable rRNA-processing protein EBP2 OS=Mus musculus OX=10090 GN=Ebna1bp2 PE=2 SV=1
Q9V9Z9	Probable rRNA-processing protein EBP2 homolog OS=Drosophila melanogaster OX=7227 GN=CG1542 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006298 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05890 all species →	Ebp2	Eukaryotic rRNA processing protein EBP2	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008610 all species →	Family	Eukaryotic rRNA processing	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13028 all species →	RRNA PROCESSING PROTEIN EBNA1-BINDING PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0006364 all species →	Biological Process	rRNA processing	Interproscan
GO:0030687 all species →	Cellular Component	preribosome, large subunit precursor	Interproscan
GO:0034399 all species →	Cellular Component	nuclear periphery	Interproscan
GO:0042273 all species →	Biological Process	ribosomal large subunit biogenesis	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
K14823	EBP2, EBNA1BP2; rRNA-processing protein EBP2	-	Ribosome biogenesis	ko03009	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_022256-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

33.8Max TPM

13.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	13.00	20.74
polyp at pH7 6	18	18	14.39	30.99
coral polyp · control treatment	16	16	15.58	27.50
coral polyp · oil and dispersant treatment	16	16	11.41	18.34
coral polyp · oil treatment	16	16	13.60	27.35
coral polyp · dispersant treatment	16	16	10.60	23.06
Polyp	10	10	19.91	33.80

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.74
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.86
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.72
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.32
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.99
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.85
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.77
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.59
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.88
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.43
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.75
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.60
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.43
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.40
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.10
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.64
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.88
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.13
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.99
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.35
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.83
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.78
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.10
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.74
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.14
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.01
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.78
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.61
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.60
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.97
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.72
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.61
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.59
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.42
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.75
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.50
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.08
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.06
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.66
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.17
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.69
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.34
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.92
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.29
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.21
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.61
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.30
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.28
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.08
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.49
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.58
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.34
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.18
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.08
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.87
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.48
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.89
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.08
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.08
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.04
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.52
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.72
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.38
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.12
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.69
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.07
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.35
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.63
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.67
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.66
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.16
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.20
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.30
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.80
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.29
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.56
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.72
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.49
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.74
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.74
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.09
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.06
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.85
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.06
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.15
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.46
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.76
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.44
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.14
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.90
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.52
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.84
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.57
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.10
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.40
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.30
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	33.80
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	33.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	32.29
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	17.85
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	16.03
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.76
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	13.42
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.35
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	12.77
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.67

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.