Gene detail

Detailed information of OS493_001197-T1 in Lophelia pertusa

Genomic Location: scaffold_2:6312472...6316505
NR annotation: KAJ7387850.1, hypothetical protein OS493_001197 [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
Q4WUR1	Serine/threonine-protein phosphatase 2B catalytic subunit OS=Aspergillus fumigatus (strain ATCC MYA-4609 / CBS 101355 / FGSC A1100 / Af293) OX=330879 GN=cnaA PE=1 SV=2
P48457	Serine/threonine-protein phosphatase 2B catalytic subunit OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) OX=227321 GN=cnaA PE=3 SV=3
Q9LR78	Serine/threonine-protein phosphatase BSU1 OS=Arabidopsis thaliana OX=3702 GN=BSU1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005068 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_001197-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR006186 all species →	Domain	Serine/threonine-specific protein phosphatase/bis(5-nucleosyl)-tetraphosphatase	Interproscan
IPR050341 all species →	Family	Serine/threonine-protein phosphatase PP1 catalytic subunit	Interproscan
IPR029052 all species →	Homologous_superfamily	Metallo-dependent phosphatase-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11668 all species →	SERINE/THREONINE PROTEIN PHOSPHATASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016787 all species →	Molecular Function	hydrolase activity	Interproscan
GO:0004722 all species →	Molecular Function	protein serine/threonine phosphatase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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_001197-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_001197-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

68.4Max TPM

16.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	16.14	23.48
polyp at pH7 6	18	18	15.33	28.57
coral polyp · control treatment	16	16	19.53	31.40
coral polyp · oil and dispersant treatment	16	16	13.04	27.58
coral polyp · oil treatment	16	16	22.58	34.26
coral polyp · dispersant treatment	16	16	8.99	18.09
Polyp	10	10	18.81	68.38

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.48
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.38
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.37
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.77
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.41
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.27
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.08
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.06
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.38
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.64
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.37
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.85
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.16
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.35
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.89
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.31
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.68
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.57
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.10
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.82
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.46
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.83
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.67
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.40
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.08
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.42
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.34
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.42
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.16
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.13
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.60
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.49
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.55
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.17
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.67
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.40
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.07
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.70
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.46
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.36
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.46
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.55
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.29
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.17
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.75
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.59
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.57
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.25
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.20
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.04
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.69
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.58
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.40
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.48
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.28
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.98
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.95
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.29
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.59
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.04
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.56
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.34
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.45
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.92
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.90
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.80
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.05
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.26
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.98
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.78
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.85
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.44
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.71
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.44
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.18
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.09
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.80
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.58
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.09
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.03
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.39
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.39
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.09
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.59
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.54
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.37
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.26
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.92
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.19
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.61
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.88
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.05
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.34
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.90
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.47
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.22
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	68.38
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	24.36
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	19.31
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	16.38
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.79
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.26
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	11.92
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.82
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.86

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.