Gene detail

Detailed information of OS493_031097-T1 in Lophelia pertusa

Genomic Location: scaffold_209:550311...552308
NR annotation: KAJ7353954.1, 26S proteasome non-ATPase regulatory subunit 1, partial [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
Q99460	26S proteasome non-ATPase regulatory subunit 1 OS=Homo sapiens OX=9606 GN=PSMD1 PE=1 SV=2
Q5R5S4	26S proteasome non-ATPase regulatory subunit 1 OS=Pongo abelii OX=9601 GN=PSMD1 PE=2 SV=1
Q3TXS7	26S proteasome non-ATPase regulatory subunit 1 OS=Mus musculus OX=10090 GN=Psmd1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004541 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18004 all species →	RPN2_C	26S proteasome regulatory subunit RPN2 C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR040623 all species →	Domain	26S proteasome regulatory subunit RPN2, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10943 all species →	26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0008540 all species →	Cellular Component	proteasome regulatory particle, base subcomplex	Interproscan
GO:0034515 all species →	Cellular Component	proteasome storage granule	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

No KEGG orthology assignment for OS493_031097-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_031097-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

92TPM > 0

7Conditions

74.3Max TPM

27.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	11	10.74	29.88
polyp at pH7 6	18	9	11.28	34.31
coral polyp · control treatment	16	16	43.21	73.55
coral polyp · oil and dispersant treatment	16	16	36.75	60.84
coral polyp · oil treatment	16	16	41.83	69.61
coral polyp · dispersant treatment	16	16	20.98	41.77
Polyp	10	8	34.03	74.31

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	-	29.88
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.47
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.37
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.76
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.06
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.22
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.07
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.80
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.18
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.57
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.88
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.31
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.76
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.38
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.80
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.44
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.07
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.50
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.88
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.88
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	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
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.48
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.02
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.40
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.01
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.89
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.06
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.26
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.35
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.13
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.05
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.64
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.56
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.37
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.84
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.72
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.63
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.70
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.55
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.86
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.29
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.49
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.84
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.75
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.57
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.04
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.98
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.56
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.42
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.61
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.46
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.21
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.97
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.78
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.20
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.35
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.17
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.40
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.22
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.61
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.44
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.73
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.62
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.33
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.14
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.77
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.51
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.15
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.53
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.53
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.50
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.53
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.52
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.85
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.76
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.62
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.62
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.40
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.97
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.47
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	74.31
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	68.14
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	62.40
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	49.41
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	38.46
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	32.92
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.43
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.21
SRR7746668	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.