Gene detail

Detailed information of OS493_015013-T1 in Lophelia pertusa

Genomic Location: scaffold_43:2039569...2041756
NR annotation: KAJ7392067.1, Nucleolar protein 58 [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
Q9Y2X3	Nucleolar protein 58 OS=Homo sapiens OX=9606 GN=NOP58 PE=1 SV=1
Q4R779	Nucleolar protein 58 OS=Macaca fascicularis OX=9541 GN=NOP58 PE=2 SV=1
Q9QZ86	Nucleolar protein 58 OS=Rattus norvegicus OX=10116 GN=Nop58 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002002 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08156 all species →	NOP5NT	NOP5NT (NUC127) domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR045056 all species →	Family	Nucleolar protein Nop56/Nop58	Interproscan
IPR012974 all species →	Domain	Nucleolar protein 58/56, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10894 all species →	NUCLEOLAR PROTEIN 5 NUCLEOLAR PROTEIN NOP5 NOP58	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0030515 all species →	Molecular Function	snoRNA binding	Interproscan
GO:0031428 all species →	Cellular Component	box C/D methylation guide snoRNP complex	Interproscan
GO:0032040 all species →	Cellular Component	small-subunit processome	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_015013-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_015013-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

108TPM > 0

7Conditions

56.8Max TPM

23.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.37	24.35
polyp at pH7 6	18	16	16.80	26.17
coral polyp · control treatment	16	16	30.23	56.83
coral polyp · oil and dispersant treatment	16	16	25.61	46.59
coral polyp · oil treatment	16	16	27.25	52.30
coral polyp · dispersant treatment	16	16	24.33	50.91
Polyp	10	10	23.17	39.78

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.35
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.34
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.21
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.49
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.12
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.02
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.84
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.18
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.87
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.84
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.46
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.91
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.16
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.93
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.86
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.47
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.97
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.64
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.17
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.10
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.15
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.85
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.83
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.47
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.68
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.02
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.68
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.95
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.93
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.90
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.03
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.51
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.67
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.83
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.70
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.12
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.80
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.19
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.69
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.65
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.64
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.45
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.73
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.56
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.09
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.66
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.61
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.29
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.76
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.59
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.70
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.17
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.65
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.30
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.90
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.98
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.44
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.68
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.70
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.84
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.74
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.77
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.32
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.51
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.45
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.30
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.66
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.56
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.81
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.22
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.08
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.91
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.84
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.74
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.71
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.35
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.27
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.97
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.92
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.10
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.54
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.91
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.46
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.26
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.23
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.13
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.35
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.89
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.10
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.70
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.68
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.25
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.25
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.07
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.45
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.85
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.61
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	39.78
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	37.97
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	29.95
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	25.02
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	22.05
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	21.07
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	16.60
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.13
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	12.38
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.75

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.