Gene detail

Detailed information of OS493_004710-T1 in Lophelia pertusa

Genomic Location: scaffold_9:3763666...3771522
NR annotation: KAJ7381112.1, hypothetical protein OS493_004710 [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
Q8N511	Vacuolar ATPase assembly protein VMA12 OS=Homo sapiens OX=9606 GN=VMA12 PE=1 SV=1
Q5RAS8	Vacuolar ATPase assembly protein VMA12 OS=Pongo abelii OX=9601 GN=VMA12 PE=2 SV=1
Q5SYH2	Vacuolar ATPase assembly protein VMA12 OS=Mus musculus OX=10090 GN=Vma12 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004591 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF11712 all species →	Vma12	Endoplasmic reticulum-based factor for assembly of V-ATPase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR021013 all species →	Family	ATPase, vacuolar ER assembly factor, Vma12	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31394 all species →	TRANSMEMBRANE PROTEIN 199	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0012505 all species →	Cellular Component	endomembrane system	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K23542	TMEM199; TMEM199 family protein	-	Membrane trafficking	ko04131	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_004710-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

58.2Max TPM

21.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	21.81	41.88
polyp at pH7 6	18	18	21.13	44.30
coral polyp · control treatment	16	16	25.78	43.46
coral polyp · oil and dispersant treatment	16	16	16.54	33.03
coral polyp · oil treatment	16	16	23.25	41.21
coral polyp · dispersant treatment	16	16	13.24	26.42
Polyp	10	10	28.97	58.18

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	-	41.88
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.90
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.71
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.10
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.24
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.83
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.60
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.49
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.95
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.65
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.86
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.78
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.74
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.85
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.46
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.25
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.74
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.57
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.30
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.14
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.32
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.37
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.96
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.19
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.97
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.92
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.62
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.59
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.05
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.10
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.96
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.12
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.65
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.44
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.79
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.46
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.57
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.06
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.79
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.88
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.41
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.10
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.17
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.86
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.80
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.35
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.69
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.59
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.03
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.12
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.52
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.03
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.70
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.36
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.83
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.80
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.18
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.08
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.92
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.96
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.93
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.82
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.94
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.70
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.21
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.09
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.10
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.35
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.38
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.22
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.23
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.83
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.07
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.01
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.10
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.66
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.39
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.63
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.10
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.42
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.16
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.72
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.23
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.20
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.17
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.35
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.42
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.49
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.14
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.08
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.64
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.85
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.30
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.99
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.66
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	58.18
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	41.55
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	37.88
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	30.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	28.66
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	25.59
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	25.29
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	16.87
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	14.07
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.61

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.