Gene detail

Detailed information of OS493_006611-T1 in Lophelia pertusa

Genomic Location: scaffold_13:4593537...4596964
NR annotation: KAJ7393624.1, hypothetical protein OS493_006611 [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
Q9Y5M8	Signal recognition particle receptor subunit beta OS=Homo sapiens OX=9606 GN=SRPRB PE=1 SV=3
Q4FZX7	Signal recognition particle receptor subunit beta OS=Rattus norvegicus OX=10116 GN=Srprb PE=2 SV=1
P47758	Signal recognition particle receptor subunit beta OS=Mus musculus OX=10090 GN=Srprb PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006781 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09439 all species →	SRPRB	Signal recognition particle receptor beta subunit	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019009 all species →	Family	Signal recognition particle receptor, beta subunit	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR005225 all species →	Domain	Small GTP-binding protein domain	Interproscan
IPR024156 all species →	Family	Small GTPase superfamily, ARF type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11711 all species →	ADP RIBOSYLATION FACTOR-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0016192 all species →	Biological Process	vesicle-mediated transport	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
K12272	SRPRB, SRP102; signal recognition particle receptor subunit beta	-	GTP-binding proteins	ko04031	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_006611-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

100.2Max TPM

33.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	32.96	52.53
polyp at pH7 6	18	18	36.53	52.49
coral polyp · control treatment	16	16	32.62	49.40
coral polyp · oil and dispersant treatment	16	16	29.58	69.95
coral polyp · oil treatment	16	16	31.92	54.52
coral polyp · dispersant treatment	16	16	19.75	28.18
Polyp	10	10	63.33	100.23

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.53
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.96
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.82
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.83
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.04
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.83
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.37
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.31
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.97
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.63
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.85
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.23
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.01
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.43
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.47
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.89
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.52
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.49
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.98
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.54
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.73
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.84
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.71
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.96
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.32
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.51
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.86
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.04
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.76
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.21
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.28
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.82
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.12
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.40
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.62
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.90
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.19
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.69
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.98
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.46
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.38
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.35
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.78
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.47
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.27
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.84
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.80
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.58
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.95
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.40
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.73
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.41
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.22
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.35
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.39
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.32
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.79
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.38
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.22
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.11
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.76
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.14
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.36
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.76
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.52
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.65
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.33
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.64
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.34
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.07
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.63
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.66
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.47
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.42
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.19
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.76
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.53
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.50
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.59
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.46
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.18
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.66
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.60
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.40
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.84
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.40
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.44
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.60
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.65
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.79
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.59
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.12
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.63
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.99
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	100.23
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	86.94
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	86.49
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	74.23
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	67.81
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	53.31
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	52.66
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	38.61
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	38.37
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	34.65

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.