Gene detail

Detailed information of OS493_028395-T1 in Lophelia pertusa

Genomic Location: scaffold_163:691217...693758
NR annotation: KAJ7389929.1, hypothetical protein OS493_028395 [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)	OG0002517 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16201 all species →	NopRA1	Nucleolar pre-ribosomal-associated protein 1	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039844 all species →	Family	Nucleolar pre-ribosomal-associated protein 1	Interproscan
IPR032436 all species →	Domain	Nucleolar pre-ribosomal-associated protein 1, C-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13500 all species →	NUCLEOLAR PRERIBOSOMAL-ASSOCIATED PROTEIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000463 all species →	Biological Process	maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	Interproscan
GO:0000466 all species →	Biological Process	maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	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_028395-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_028395-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

105TPM > 0

7Conditions

21.5Max TPM

4.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	2.70	6.48
polyp at pH7 6	18	17	2.89	5.71
coral polyp · control treatment	16	16	4.88	14.10
coral polyp · oil and dispersant treatment	16	16	4.23	9.27
coral polyp · oil treatment	16	16	6.32	21.46
coral polyp · dispersant treatment	16	15	4.10	11.87
Polyp	10	9	3.47	9.95

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.48
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.88
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.81
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.55
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.50
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.12
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.51
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.83
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.31
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.29
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.56
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.51
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.45
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
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.71
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.28
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.46
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.45
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.26
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.80
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.55
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.45
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.08
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.86
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.87
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.74
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.72
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.97
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.96
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.47
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.10
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.80
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.37
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.80
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.70
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.49
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.42
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.02
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.84
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.30
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.05
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.80
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.51
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.36
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.97
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.27
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.95
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.57
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.76
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.42
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.03
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.99
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.78
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.74
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.76
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.42
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.34
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.25
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.13
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.67
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.59
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.46
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.92
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.53
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.51
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.51
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.96
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.21
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.74
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.11
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.06
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.76
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.75
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.56
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.70
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.50
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.79
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.87
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.80
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.22
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.71
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.61
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.09
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.97
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.87
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.64
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.58
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.40
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.91
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.66
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.08
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.95
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.29
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.43
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.36
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.07
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.56
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.32
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.28
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.43
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.