Gene detail

Detailed information of OS493_017996-T1 in Lophelia pertusa

Genomic Location: scaffold_58:1555353...1557425
NR annotation: KAJ7372722.1, 26S proteasome non-ATPase regulatory subunit 12 [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
Q2KJ25	26S proteasome non-ATPase regulatory subunit 12 OS=Bos taurus OX=9913 GN=PSMD12 PE=2 SV=3
Q9D8W5	26S proteasome non-ATPase regulatory subunit 12 OS=Mus musculus OX=10090 GN=Psmd12 PE=1 SV=4
Q5RBI3	26S proteasome non-ATPase regulatory subunit 12 OS=Pongo abelii OX=9601 GN=PSMD12 PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006994 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_017996-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR040134 all species →	Family	26S Proteasome non-ATPase regulatory subunit 12/COP9 signalosome complex subunit 4	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10855 all species →	26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 12/COP9 SIGNALOSOME COMPLEX SUBUNIT 4	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	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

No KEGG orthology assignment for OS493_017996-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_017996-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

103.9Max TPM

29.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.64	20.45
polyp at pH7 6	18	18	17.08	24.57
coral polyp · control treatment	16	16	38.90	78.08
coral polyp · oil and dispersant treatment	16	16	59.24	103.90
coral polyp · oil treatment	16	16	31.42	70.66
coral polyp · dispersant treatment	16	15	31.50	74.94
Polyp	10	10	12.41	21.01

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.45
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.37
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.74
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.45
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.16
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.01
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.65
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.60
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.63
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.26
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.26
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.12
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.10
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.80
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.68
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.35
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.43
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.41
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.57
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.02
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.99
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.98
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.32
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.08
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.48
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.25
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.44
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.96
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.93
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.74
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.92
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.27
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.38
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.15
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.10
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.85
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.08
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.11
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.09
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.83
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.65
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.48
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.36
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.29
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.55
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.79
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.79
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.30
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.31
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.73
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.18
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.77
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	103.90
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	100.54
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	97.68
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.87
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.80
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.88
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.29
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.11
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.45
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.05
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.04
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.04
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.47
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.92
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.50
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.32
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.66
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.37
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.20
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.02
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.44
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.42
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.07
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.75
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.20
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.88
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.80
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.43
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.27
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.19
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.83
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	74.94
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.27
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.01
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.21
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.56
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.09
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.47
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.80
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.14
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.83
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.16
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.53
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.67
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.58
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.67
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	21.01
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	19.70
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	16.58
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.42
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.80
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.69
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.68
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.45
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.12
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.70

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.