Gene detail

Detailed information of OS493_006806-T1 in Lophelia pertusa

Genomic Location: scaffold_14:2321449...2347573
NR annotation: KAJ7386780.1, 26S proteasome non-ATPase regulatory subunit 3 [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
P14685	26S proteasome non-ATPase regulatory subunit 3 OS=Mus musculus OX=10090 GN=Psmd3 PE=1 SV=3
Q2KJ46	26S proteasome non-ATPase regulatory subunit 3 OS=Bos taurus OX=9913 GN=PSMD3 PE=2 SV=1
O43242	26S proteasome non-ATPase regulatory subunit 3 OS=Homo sapiens OX=9606 GN=PSMD3 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007144 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01399 all species →	PCI	PCI domain	Domain	Interproscan
PF08375 all species →	Rpn3_C	Proteasome regulatory subunit C-terminal	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000717 all species →	Domain	Proteasome component (PCI) domain	Interproscan
IPR013586 all species →	Domain	26S proteasome regulatory subunit, C-terminal	Interproscan
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR050756 all species →	Family	COP9 signalosome complex subunit 3	Interproscan
IPR036390 all species →	Homologous_superfamily	Winged helix DNA-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10758 all species →	26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 3/COP9 SIGNALOSOME COMPLEX SUBUNIT 3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000502 all species →	Cellular Component	proteasome complex	Interproscan
GO:0030234 all species →	Molecular Function	enzyme regulator activity	Interproscan
GO:0042176 all species →	Biological Process	regulation of protein catabolic process	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0006511 all species →	Biological Process	ubiquitin-dependent protein catabolic process	Interproscan
GO:0008541 all species →	Cellular Component	proteasome regulatory particle, lid subcomplex	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
K03033	PSMD3, RPN3; 26S proteasome regulatory subunit N3	-	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_006806-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

316.3Max TPM

112.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	72.32	96.00
polyp at pH7 6	18	18	85.60	113.35
coral polyp · control treatment	16	16	99.03	183.91
coral polyp · oil and dispersant treatment	16	16	187.76	283.97
coral polyp · oil treatment	16	16	90.37	143.67
coral polyp · dispersant treatment	16	16	114.49	263.22
Polyp	10	10	165.53	316.26

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	-	96.00
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	93.98
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	87.86
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	86.44
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	86.21
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	85.82
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	83.91
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	74.94
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	67.52
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.85
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.15
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.73
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.09
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.56
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.54
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.95
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.23
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.04
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	113.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	108.97
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	107.92
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	98.06
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	97.29
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	94.46
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	94.14
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	91.74
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.85
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.64
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.92
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	80.03
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	69.97
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	67.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.86
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.85
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.70
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.60
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	183.91
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	170.96
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	142.29
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	124.00
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	111.26
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	101.08
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	95.86
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.36
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.93
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.69
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.06
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.24
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.19
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.09
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.84
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.79
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	283.97
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	267.32
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	228.73
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	221.89
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	218.77
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	214.52
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	202.20
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	198.85
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	188.88
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	163.03
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	162.79
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	158.54
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	154.39
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	118.55
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	115.04
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	106.71
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	143.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	138.94
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	114.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	113.74
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	109.65
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	103.15
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	90.43
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	84.46
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.68
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.15
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.27
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.40
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.04
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.91
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.40
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.85
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	263.22
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	179.85
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	157.87
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	134.37
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	131.69
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	117.84
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	100.60
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	100.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	98.65
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	97.99
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	96.18
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	83.56
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	76.44
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	73.89
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.65
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.83
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	316.26
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	303.16
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	219.84
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	218.15
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	196.89
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	110.34
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	108.33
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	72.90
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	67.22
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	42.20

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.