Gene detail

Detailed information of OS493_008618-T1 in Lophelia pertusa

Genomic Location: scaffold_20:2281196...2284094
NR annotation: KAJ7386484.1, Nucleolar complex protein 4 [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
Q6NU91	Nucleolar complex protein 4 homolog B OS=Xenopus laevis OX=8355 GN=noc4l-b PE=2 SV=1
Q6NRQ2	Nucleolar complex protein 4 homolog A OS=Xenopus laevis OX=8355 GN=noc4l-a PE=2 SV=1
Q8BHY2	Nucleolar complex protein 4 homolog OS=Mus musculus OX=10090 GN=Noc4l PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008135 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03914 all species →	CBF	CBF/Mak21 family	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027193 all species →	Family	Nucleolar complex protein 4	Interproscan
IPR005612 all species →	Domain	CCAAT-binding factor	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12455 all species →	NUCLEOLAR COMPLEX PROTEIN 4	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0030692 all species →	Cellular Component	Noc4p-Nop14p complex	Interproscan
GO:0032040 all species →	Cellular Component	small-subunit processome	Interproscan
GO:0042254 all species →	Biological Process	ribosome 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
K14771	NOC4, UTP19; U3 small nucleolar RNA-associated protein 19	-	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_008618-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

6.1Max TPM

2.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.15	4.92
polyp at pH7 6	18	18	2.35	4.10
coral polyp · control treatment	16	16	3.02	6.13
coral polyp · oil and dispersant treatment	16	16	2.10	5.81
coral polyp · oil treatment	16	16	2.08	4.43
coral polyp · dispersant treatment	16	16	1.42	3.93
Polyp	10	10	2.51	5.66

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	-	4.92
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.92
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.48
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.05
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.36
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.26
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.15
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.98
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.83
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.82
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.75
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.53
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.44
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.37
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.34
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.26
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.25
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.92
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.10
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.78
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.19
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.11
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.94
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.76
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.71
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.58
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.22
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.10
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.94
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.89
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.46
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.46
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.06
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.03
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.99
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.13
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.50
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.70
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.21
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.18
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.65
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.05
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.78
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.71
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.56
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.44
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.06
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.79
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.19
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.81
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.02
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.63
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.50
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.41
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.31
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.96
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.92
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.66
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.53
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.35
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.30
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.18
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.04
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.80
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.43
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.95
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.31
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.84
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.50
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.06
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.04
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.92
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.70
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.54
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.44
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.40
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.30
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.26
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.99
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.53
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.93
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.61
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.13
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.70
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.50
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.47
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.22
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.18
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.02
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.73
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.64
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.12
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.66
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.29
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.13
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.17
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.70
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.63
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.59
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.57
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.28
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.08

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.