Gene detail

Detailed information of OS493_009854-T1 in Lophelia pertusa

Genomic Location: scaffold_23:3358432...3362814
NR annotation: KAJ7363691.1, Proteasome assembly chaperone 1 [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
A7RV13	Proteasome assembly chaperone 1 OS=Nematostella vectensis OX=45351 GN=psmg1 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009274 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16094 all species →	PAC1	Proteasome assembly chaperone 4	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016565 all species →	Family	Proteasome assembly chaperone 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15069 all species →	PROTEASOME ASSEMBLY CHAPERONE 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005783 all species →	Cellular Component	endoplasmic reticulum	Interproscan
GO:0043248 all species →	Biological Process	proteasome assembly	Interproscan
GO:0070628 all species →	Molecular Function	proteasome binding	Interproscan
GO:0080129 all species →	Biological Process	proteasome core complex assembly	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
K11875	PSMG1, DSCR2, PAC1; proteasome assembly chaperone 1	-	Proteasome	ko03051	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_009854-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

28.5Max TPM

10.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.58	19.14
polyp at pH7 6	18	17	10.65	16.70
coral polyp · control treatment	16	16	9.87	14.87
coral polyp · oil and dispersant treatment	16	16	9.45	17.76
coral polyp · oil treatment	16	16	9.41	14.54
coral polyp · dispersant treatment	16	16	5.80	12.40
Polyp	10	10	17.25	28.54

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.14
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.15
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.99
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.41
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.12
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.27
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.04
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.85
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.45
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.82
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.06
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.12
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.98
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.94
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.78
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.87
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.61
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.70
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.07
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.44
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.36
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.51
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.96
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.35
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.24
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.94
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.86
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.69
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.60
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.52
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.48
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.45
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.87
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.65
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.62
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.59
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.68
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.30
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.71
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.60
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.43
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.28
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.52
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.98
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.93
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.67
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.76
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.76
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.48
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.05
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.43
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.05
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.88
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.44
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.10
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.71
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.66
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.37
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.86
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.88
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.50
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.22
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.54
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.71
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.92
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.68
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.56
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.45
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.43
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.86
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.83
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.68
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.62
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.54
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.98
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.61
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.77
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.40
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.65
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.34
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.01
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.75
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.37
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.84
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.75
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.72
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.42
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.30
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.23
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.94
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.14
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.08
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.93
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	28.54
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	23.29
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	21.39
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	18.50
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	16.49
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.25
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	14.16
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.63
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.17
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.09

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.