Gene detail

Detailed information of OS493_000045-T1 in Lophelia pertusa

Genomic Location: scaffold_1:482926...483936
NR annotation: KAJ7394243.1, surfeit locus protein [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)	OG0008957 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF15459 all species →	RRP14	60S ribosome biogenesis protein Rrp14	Family	Interproscan
PF04935 all species →	SURF6	Surfeit locus protein 6	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007019 all species →	Family	Surfeit locus 6	Interproscan
IPR029188 all species →	Domain	Ribosomal RNA-processing protein 14, N-terminal	Interproscan
IPR029190 all species →	Domain	Ribosomal RNA-processing protein 14/surfeit locus protein 6, C-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14369 all species →	SURFEIT LOCUS PROTEIN 6	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0042273 all species →	Biological Process	ribosomal large subunit biogenesis	Interproscan
GO:0042274 all species →	Biological Process	ribosomal small 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_000045-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_000045-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

109TPM > 0

7Conditions

17.2Max TPM

7.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.56	14.96
polyp at pH7 6	18	18	7.56	16.97
coral polyp · control treatment	16	16	9.61	17.08
coral polyp · oil and dispersant treatment	16	16	7.51	17.16
coral polyp · oil treatment	16	16	7.66	13.19
coral polyp · dispersant treatment	16	16	5.18	15.56
Polyp	10	9	4.96	11.18

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	-	14.96
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.59
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.76
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.74
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.68
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.05
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.71
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.14
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.77
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.52
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.27
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.25
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.16
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.15
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.93
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.73
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.61
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.97
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.89
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.80
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.36
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.10
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.79
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.52
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.06
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.55
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.92
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.63
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.38
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.73
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.05
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.79
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.07
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.55
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.08
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.84
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.50
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.57
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.82
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.04
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.02
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.35
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.27
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.43
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.82
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.49
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.12
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.80
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.01
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.60
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.16
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.57
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.58
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.76
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.44
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.36
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.26
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.12
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.48
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.43
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.12
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.03
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.00
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.43
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.34
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.10
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.19
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.96
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.13
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.06
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.45
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.43
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.24
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.46
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.67
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.81
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.65
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.57
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.83
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.12
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.35
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.54
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.56
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.26
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.97
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.67
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.05
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.11
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.07
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.79
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.52
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.11
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.07
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.88
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.43
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.23
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.81
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.29
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	11.18
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.51
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.49
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.31
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.26
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.67
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.17
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.60
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.46
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.