Gene detail

Detailed information of OS493_020329-T1 in Lophelia pertusa

Genomic Location: scaffold_74:1292044...1299617
NR annotation: KAJ7384740.1, Glioma tumor suppressor candidate region protein 2 [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
Q9NZM5	Ribosome biogenesis protein NOP53 OS=Homo sapiens OX=9606 GN=NOP53 PE=1 SV=2
Q8BK35	Ribosome biogenesis protein NOP53 OS=Mus musculus OX=10090 GN=Nop53 PE=1 SV=1
Q9W3C2	Ribosome biogenesis protein NOP53 OS=Drosophila melanogaster OX=7227 GN=CG1785 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005909 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07767 all species →	Nop53	Nop53 (60S ribosomal biogenesis)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011687 all species →	Family	Ribosome biogenesis protein Nop53/GLTSCR2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14211 all species →	GLIOMA SUPPRESSOR CANDIDATE REGION GENE 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000027 all species →	Biological Process	ribosomal large subunit assembly	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0006364 all species →	Biological Process	rRNA processing	Interproscan
GO:0008097 all species →	Molecular Function	5S rRNA 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
K14840	NOP53, GLTSCR2; nucleolar protein 53	-	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_020329-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

62.9Max TPM

21.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	18.88	28.90
polyp at pH7 6	18	18	25.35	60.05
coral polyp · control treatment	16	16	24.69	62.93
coral polyp · oil and dispersant treatment	16	16	20.51	34.41
coral polyp · oil treatment	16	16	21.33	36.17
coral polyp · dispersant treatment	16	16	15.92	31.48
Polyp	10	10	20.13	32.55

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	-	28.90
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.51
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.07
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.58
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.26
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.18
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.16
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.56
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.52
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.18
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.95
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.89
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.95
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.51
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.64
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.77
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.76
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.47
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.05
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.36
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.60
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.97
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.59
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.50
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.05
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.98
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.81
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.67
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.19
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.89
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.37
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.82
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.59
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.29
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.26
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.29
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.93
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.93
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.81
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.17
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.10
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.17
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.73
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.74
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.89
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.41
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.68
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.52
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.35
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.92
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.20
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.42
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.41
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.85
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.79
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.52
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.17
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.54
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.26
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.18
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.43
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.71
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.17
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.71
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.07
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.67
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.64
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.06
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.17
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.14
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.79
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.56
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.81
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.22
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.98
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.44
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.30
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.89
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.54
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.88
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.56
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.53
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.48
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.48
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.48
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.97
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.73
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.52
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.39
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.70
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.55
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.70
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.45
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.75
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.10
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.07
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.05
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.75
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.11
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	32.55
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	22.30
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	21.20
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.03
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	20.29
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	19.60
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	19.12
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	18.18
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	17.60
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.45

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.