Gene detail

Detailed information of OS493_010707-T1 in Lophelia pertusa

Genomic Location: scaffold_26:2903552...2907253
NR annotation: KAJ7386301.1, Rhodanese- sulfurtransferase [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
Q2KIH4	Ribosome biogenesis regulatory protein homolog OS=Bos taurus OX=9913 GN=RRS1 PE=2 SV=1
Q9CYH6	Ribosome biogenesis regulatory protein homolog OS=Mus musculus OX=10090 GN=Rrs1 PE=1 SV=1
A1A5P2	Ribosome biogenesis regulatory protein homolog OS=Rattus norvegicus OX=10116 GN=Rrs1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006389 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04939 all species →	RRS1	Ribosome biogenesis regulatory protein (RRS1)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007023 all species →	Family	Ribosomal biogenesis regulatory protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR17602 all species →	RIBOSOME BIOGENESIS REGULATORY PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000447 all species →	Biological Process	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0030687 all species →	Cellular Component	preribosome, large subunit precursor	Interproscan
GO:0042254 all species →	Biological Process	ribosome biogenesis	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

No KEGG orthology assignment for OS493_010707-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_010707-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

106TPM > 0

7Conditions

29.2Max TPM

10.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.76	16.32
polyp at pH7 6	18	14	8.92	14.15
coral polyp · control treatment	16	16	13.65	29.18
coral polyp · oil and dispersant treatment	16	16	10.60	19.53
coral polyp · oil treatment	16	16	10.65	20.59
coral polyp · dispersant treatment	16	16	8.58	22.88
Polyp	10	10	7.37	22.41

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	-	16.32
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.94
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.11
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.59
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.29
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.61
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.97
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.54
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.31
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.59
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.86
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.68
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.16
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.68
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.45
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.39
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.26
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.99
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.15
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.26
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.13
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.67
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.31
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.25
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.53
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.15
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.67
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.53
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.32
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.16
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.85
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.63
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	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
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.18
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.37
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.46
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.02
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.72
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.92
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.82
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.46
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.32
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.19
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.16
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.96
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.22
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.04
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.18
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.38
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.53
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.63
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.48
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.70
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.13
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.47
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.85
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.53
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.35
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.66
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.49
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.24
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.08
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.69
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.83
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.59
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.86
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.36
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.31
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.46
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.43
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.78
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.00
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.40
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.18
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.99
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.85
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.68
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.84
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.85
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.80
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.88
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.89
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.71
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.44
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.88
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.21
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.16
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.83
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.83
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.68
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.41
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.63
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.95
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.25
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	22.41
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.59
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.55
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.70
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.57
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.91
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.51
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.17
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.03
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.23

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.