Gene detail

Detailed information of OS493_002859-T1 in Lophelia pertusa

Genomic Location: scaffold_6:1231712...1249732
NR annotation: KAJ7340133.1, Ribosomal RNA-processing protein 7 A [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
Q5RA17	Ribosomal RNA-processing protein 7 homolog A OS=Pongo abelii OX=9601 GN=RRP7A PE=2 SV=1
Q9Y3A4	Ribosomal RNA-processing protein 7 homolog A OS=Homo sapiens OX=9606 GN=RRP7A PE=1 SV=2
Q9D1C9	Ribosomal RNA-processing protein 7 homolog A OS=Mus musculus OX=10090 GN=Rrp7a PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006344 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12923 all species →	RRP7	Ribosomal RNA-processing protein 7 (RRP7) C-terminal domain	Domain	Interproscan
PF00754 all species →	F5_F8_type_C	F5/8 type C domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000421 all species →	Domain	Coagulation factor 5/8 C-terminal domain	Interproscan
IPR024326 all species →	Domain	Ribosomal RNA-processing protein 7, C-terminal domain	Interproscan
IPR008979 all species →	Homologous_superfamily	Galactose-binding-like domain superfamily	Interproscan
IPR040446 all species →	Family	Ribosomal RNA-processing protein 7	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13191 all species →	RIBOSOMAL RNA PROCESSING PROTEIN 7-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000028 all species →	Biological Process	ribosomal small subunit assembly	Interproscan
GO:0006364 all species →	Biological Process	rRNA processing	Interproscan
GO:0032545 all species →	Cellular Component	CURI complex	Interproscan
GO:0034456 all species →	Cellular Component	UTP-C complex	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_002859-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_002859-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

77.6Max TPM

17.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.31	14.52
polyp at pH7 6	18	18	8.09	11.65
coral polyp · control treatment	16	16	17.27	37.50
coral polyp · oil and dispersant treatment	16	16	25.60	55.46
coral polyp · oil treatment	16	16	13.47	19.30
coral polyp · dispersant treatment	16	16	39.34	77.58
Polyp	10	10	6.58	10.72

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.52
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.99
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.12
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.39
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.26
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.65
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.17
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.97
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.81
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.76
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.45
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.41
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.17
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.95
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.79
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.71
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.66
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.87
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.65
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.51
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.39
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.08
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.58
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.41
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.92
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.23
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.85
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.67
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.67
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.54
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.08
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.32
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.18
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.06
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.95
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.42
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.50
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.20
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.70
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.27
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.48
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.91
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.78
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.21
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.94
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.13
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.68
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.17
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.47
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.46
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.08
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.47
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.85
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.19
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.06
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.75
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.17
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.99
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.85
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.58
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.63
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.39
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.88
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.58
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.30
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.19
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.80
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.18
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.59
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.27
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.77
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.18
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.17
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.29
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.79
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.38
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.36
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.27
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.15
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.91
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	77.58
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.74
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.36
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.24
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.06
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.65
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.86
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.86
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.02
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.69
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.81
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.29
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.71
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.23
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.64
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.66
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	10.72
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.78
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.06
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.91
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.87
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.57
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.39
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.10
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.25
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.19

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.