Gene detail

Detailed information of OS493_027561-T1 in Lophelia pertusa

Genomic Location: scaffold_151:270931...273998
NR annotation: KAJ7390036.1, hypothetical protein OS493_027561 [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
Q12770	Sterol regulatory element-binding protein cleavage-activating protein OS=Homo sapiens OX=9606 GN=SCAP PE=1 SV=4
A2RRU4	Sterol regulatory element-binding protein cleavage-activating protein OS=Rattus norvegicus OX=10116 GN=Scap PE=2 SV=1
A6QM06	Sterol regulatory element-binding protein cleavage-activating protein OS=Bos taurus OX=9913 GN=SCAP PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004100 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12349 all species →	Sterol-sensing	Sterol-sensing domain of SREBP cleavage-activation	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000731 all species →	Domain	Sterol-sensing domain	Interproscan
IPR030225 all species →	Family	Sterol regulatory element-binding protein cleavage-activating protein	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: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_027561-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_027561-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

102TPM > 0

7Conditions

21.8Max TPM

6.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	6.51	11.24
polyp at pH7 6	18	14	4.68	8.06
coral polyp · control treatment	16	16	9.29	16.78
coral polyp · oil and dispersant treatment	16	16	7.48	21.77
coral polyp · oil treatment	16	16	7.62	12.21
coral polyp · dispersant treatment	16	16	6.62	13.20
Polyp	10	8	2.45	7.01

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.24
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.79
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.71
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.73
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.43
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.02
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.59
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.42
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.67
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.62
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.87
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.86
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.60
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.56
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.79
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.06
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.89
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.47
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.05
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.81
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.30
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.06
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.03
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.85
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.74
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.69
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.67
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.96
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.71
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
SRR11359524	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
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.78
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.05
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.87
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.34
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.25
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.49
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.67
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.82
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.31
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.79
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.79
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.20
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.21
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.27
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.34
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.46
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.77
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.66
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.09
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.07
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.96
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.23
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.80
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.70
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.14
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.91
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.88
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.83
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.60
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.90
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.17
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.21
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.42
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.03
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.40
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.20
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.42
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.35
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.32
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.06
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.95
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.67
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.70
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.21
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.13
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.87
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.20
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.73
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.33
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.31
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.50
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.21
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.80
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.80
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.88
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.85
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.38
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.85
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.71
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.51
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.39
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.01
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.40
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.79
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.48
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.85
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.70
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.77
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.50
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.