Gene detail

Detailed information of OS493_013143-T1 in Lophelia pertusa

Genomic Location: scaffold_35:630927...632516
NR annotation: KAJ7362054.1, hypothetical protein OS493_013143 [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
Q03880	V-type ATPase assembly factor PKR1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=PKR1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0012255 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08636 all species →	Pkr1	ER protein Pkr1	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013945 all species →	Family	V-type ATPase assembly factor Pkr1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR28251 all species →	V-TYPE ATPASE ASSEMBLY FACTOR PKR1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0030176 all species →	Cellular Component	obsolete integral component of endoplasmic reticulum membrane	Interproscan
GO:0070072 all species →	Biological Process	vacuolar proton-transporting V-type ATPase complex assembly	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_013143-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_013143-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

99TPM > 0

7Conditions

15.1Max TPM

3.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	12	1.88	4.60
polyp at pH7 6	18	15	3.24	6.48
coral polyp · control treatment	16	16	5.80	15.14
coral polyp · oil and dispersant treatment	16	16	4.16	9.42
coral polyp · oil treatment	16	16	4.67	9.31
coral polyp · dispersant treatment	16	15	3.10	6.40
Polyp	10	9	4.31	10.58

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	-	4.60
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.52
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.46
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.58
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.34
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.24
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.42
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.41
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.83
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.57
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.09
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.85
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
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.48
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.15
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.81
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.65
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.63
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.93
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.58
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.49
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.84
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.69
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.46
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.27
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.14
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
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.14
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.73
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.90
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.28
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.02
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.78
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.24
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.78
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.35
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.10
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.61
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.03
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.58
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.08
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.96
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.29
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.42
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.07
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.39
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.35
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.77
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.37
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.69
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.60
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.47
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.26
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.17
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.72
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.14
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.61
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.38
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.19
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.31
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.09
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.55
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.35
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.98
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.19
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.04
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.83
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.77
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.57
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.45
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.07
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.53
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.95
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.76
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.40
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.98
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.66
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.54
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.41
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.18
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.67
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.51
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.61
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.25
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.07
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.77
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.23
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.99
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.58
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.89
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.77
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.78
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.44
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.11
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.66
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.61
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.30
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.