Gene detail

Detailed information of OS493_012551-T1 in Lophelia pertusa

Genomic Location: scaffold_33:406419...411558
NR annotation: KAJ7379804.1, 26S proteasome non-ATPase regulatory subunit 8 [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
Q5RE15	26S proteasome non-ATPase regulatory subunit 8 (Fragment) OS=Pongo abelii OX=9601 GN=PSMD8 PE=2 SV=2
P48556	26S proteasome non-ATPase regulatory subunit 8 OS=Homo sapiens OX=9606 GN=PSMD8 PE=1 SV=2
Q3SYT7	26S proteasome non-ATPase regulatory subunit 8 OS=Bos taurus OX=9913 GN=PSMD8 PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007582 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10075 all species →	CSN8_PSD8_EIF3K	CSN8/PSMD8/EIF3K family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006746 all species →	Family	26S proteasome non-ATPase regulatory subunit Rpn12	Interproscan
IPR033464 all species →	Domain	CSN8/PSMD8/EIF3K	Interproscan
IPR000717 all species →	Domain	Proteasome component (PCI) domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12387 all species →	26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 8	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0005838 all species →	Cellular Component	proteasome regulatory particle	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0008541 all species →	Cellular Component	proteasome regulatory particle, lid subcomplex	Interproscan
GO:0043161 all species →	Biological Process	proteasome-mediated ubiquitin-dependent protein catabolic 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K03031	PSMD8, RPN12; 26S proteasome regulatory subunit N12	-	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_012551-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

689.9Max TPM

124.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	80.76	125.92
polyp at pH7 6	18	18	94.45	132.53
coral polyp · control treatment	16	16	109.29	270.89
coral polyp · oil and dispersant treatment	16	16	192.16	288.36
coral polyp · oil treatment	16	16	99.44	143.88
coral polyp · dispersant treatment	16	16	101.70	323.69
Polyp	10	10	247.93	689.93

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	-	125.92
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	114.90
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	110.69
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	100.79
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	98.53
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	88.46
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	87.84
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	81.94
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	81.75
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	78.11
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	77.23
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	76.82
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.13
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	73.43
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.48
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.80
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.93
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.87
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	132.53
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	125.12
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	120.26
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	119.26
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	116.12
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	113.35
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	97.63
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	97.61
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	94.96
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.07
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	89.60
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	88.05
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	78.86
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.67
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.74
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.78
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.56
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	270.89
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	149.01
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	141.35
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	135.91
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	117.98
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	107.56
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	107.03
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	102.18
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.67
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	95.02
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	85.36
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.46
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.86
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.28
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.65
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.52
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	288.36
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	270.34
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	263.26
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	247.87
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	226.84
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	211.69
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	200.09
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	177.77
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	175.78
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	168.81
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	162.36
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	156.78
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	155.32
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	135.71
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	119.54
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	113.97
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	143.88
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	141.83
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	141.10
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	117.56
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	116.51
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	114.87
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	105.20
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	95.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	90.97
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	86.32
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.64
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.15
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.07
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.14
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.80
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.09
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	323.69
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	205.04
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	133.56
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	126.15
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	115.86
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	104.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	75.07
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	71.33
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.49
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.15
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.64
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.03
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.89
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.68
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	689.93
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	450.58
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	357.25
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	247.15
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	241.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	152.22
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	122.28
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	87.58
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	71.65
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	59.67

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.