Gene detail

Detailed information of OS493_027560-T1 in Lophelia pertusa

Genomic Location: scaffold_151:261368...269745
NR annotation: KAJ7390035.1, hypothetical protein OS493_027560 [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
A2RRU4	Sterol regulatory element-binding protein cleavage-activating protein OS=Rattus norvegicus OX=10116 GN=Scap PE=2 SV=1
Q6GQT6	Sterol regulatory element-binding protein cleavage-activating protein OS=Mus musculus OX=10090 GN=Scap PE=1 SV=1
P97260	Sterol regulatory element-binding protein cleavage-activating protein OS=Cricetulus griseus OX=10029 GN=SCAP PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004100 (this species only)
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR030225 all species →	Family	Sterol regulatory element-binding protein cleavage-activating protein	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46378 all species →	STEROL REGULATORY ELEMENT-BINDING PROTEIN CLEAVAGE-ACTIVATING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000139 all species →	Cellular Component	Golgi membrane	Interproscan
GO:0005789 all species →	Cellular Component	endoplasmic reticulum membrane	Interproscan
GO:0032933 all species →	Biological Process	SREBP signaling pathway	Interproscan
GO:0032934 all species →	Molecular Function	sterol binding	Interproscan
GO:0032936 all species →	Cellular Component	SREBP-SCAP complex	Interproscan
GO:0045540 all species →	Biological Process	regulation of cholesterol biosynthetic process	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_027560-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_027560-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

19.6Max TPM

9.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.30	12.24
polyp at pH7 6	18	18	8.55	12.89
coral polyp · control treatment	16	16	13.15	19.58
coral polyp · oil and dispersant treatment	16	16	9.18	15.45
coral polyp · oil treatment	16	16	11.48	17.10
coral polyp · dispersant treatment	16	16	8.20	15.61
Polyp	10	9	4.45	9.67

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.24
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.97
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.18
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.10
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.56
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.45
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.02
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.95
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.85
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.56
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.16
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.38
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.33
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.76
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.65
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.51
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.29
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.50
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.89
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.62
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.53
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.75
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.18
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.03
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.78
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.54
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.45
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.40
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.99
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.42
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.22
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.78
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.47
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.42
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.58
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.66
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.87
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.52
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.49
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.48
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.38
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.90
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.25
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.23
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.27
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.71
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.55
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.73
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.71
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.07
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.45
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.39
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.69
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.26
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.49
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.89
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.19
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.11
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.09
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.54
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.33
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.12
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.99
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.89
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.06
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.46
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.10
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.75
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.61
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.86
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.11
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.67
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.13
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.96
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.04
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.76
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.91
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.51
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.25
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.94
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.37
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.61
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.56
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.34
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.74
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.51
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.54
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.21
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.18
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.90
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.17
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.49
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.25
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.56
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.52
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.50
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.67
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.85
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.68
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.03
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.29
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.79
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.68
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.64
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.83
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.