Gene detail

Detailed information of OS493_016392-T1 in Lophelia pertusa

Genomic Location: scaffold_50:904991...913363
NR annotation: KAJ7385317.1, Proteasome subunit alpha 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
Q9R1P4	Proteasome subunit alpha type-1 OS=Mus musculus OX=10090 GN=Psma1 PE=1 SV=1
Q3T0X5	Proteasome subunit alpha type-1 OS=Bos taurus OX=9913 GN=PSMA1 PE=1 SV=1
P25786	Proteasome subunit alpha type-1 OS=Homo sapiens OX=9606 GN=PSMA1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006365 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00227 all species →	Proteasome	Proteasome subunit	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029055 all species →	Homologous_superfamily	Nucleophile aminohydrolases, N-terminal	Interproscan
IPR000426 all species →	Domain	Proteasome alpha-subunit, N-terminal domain	Interproscan
IPR001353 all species →	Family	Proteasome, subunit alpha/beta	Interproscan
IPR050115 all species →	Family	Proteasome subunit alpha	Interproscan
IPR023332 all species →	Family	Proteasome alpha-type subunit	Interproscan
IPR035144 all species →	Family	Proteasome subunit alpha 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11599 all species →	PROTEASOME SUBUNIT ALPHA/BETA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006511 all species →	Biological Process	ubiquitin-dependent protein catabolic process	Interproscan
GO:0019773 all species →	Cellular Component	proteasome core complex, alpha-subunit complex	Interproscan
GO:0005839 all species →	Cellular Component	proteasome core complex	Interproscan
GO:0051603 all species →	Biological Process	proteolysis involved in protein catabolic process	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0010498 all species →	Biological Process	proteasomal 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
K02725	PSMA1; 20S proteasome subunit alpha 6	EC:3.4.25.1	Exosome	ko04147	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_016392-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

274.6Max TPM

98.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	86.10	123.47
polyp at pH7 6	18	18	89.94	116.82
coral polyp · control treatment	16	16	88.45	231.36
coral polyp · oil and dispersant treatment	16	16	137.85	245.08
coral polyp · oil treatment	16	16	91.04	151.81
coral polyp · dispersant treatment	16	16	74.10	173.24
Polyp	10	10	141.62	274.57

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	123.47
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	122.17
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	105.88
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	105.08
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	91.39
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	86.01
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	85.47
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	82.87
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	80.51
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	78.98
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	78.58
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	78.41
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	77.90
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.67
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.90
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.05
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	67.71
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	66.66
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	116.82
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	113.40
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	104.44
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	99.47
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	97.62
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	97.11
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	95.79
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	95.23
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	94.41
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.47
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	87.17
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	86.31
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	84.96
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	78.89
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.37
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	71.30
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	68.65
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.51
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	231.36
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	120.48
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	111.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	110.30
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	101.22
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	91.17
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	89.00
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.58
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.10
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.99
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.98
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.51
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.89
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.64
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	245.08
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	231.73
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	193.10
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	182.85
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	152.89
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	137.16
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	133.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	122.49
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	120.92
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	119.39
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	113.12
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	107.79
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	102.50
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	98.77
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.36
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.63
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	151.81
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	148.95
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	123.10
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	122.20
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	102.40
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	92.99
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	88.70
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	87.76
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.07
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.76
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.07
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.73
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	67.40
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.90
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.72
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.03
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	173.24
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	105.45
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	95.51
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	85.94
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	85.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	84.09
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	72.77
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.11
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.71
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.82
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	59.88
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.43
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.33
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.56
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.60
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.06
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	274.57
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	187.56
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	163.45
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	152.55
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	144.62
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	136.89
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	122.51
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	96.14
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	76.75
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	61.12

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.