Gene detail

Detailed information of OS493_026607-T1 in Lophelia pertusa

Genomic Location: scaffold_138:532920...534355
NR annotation: KAJ7327729.1, vacuolar ATPase assembly integral membrane protein vma21 [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
B8JLV7	Vacuolar ATPase assembly integral membrane protein vma21 OS=Danio rerio OX=7955 GN=vma21 PE=3 SV=1
Q5ZLL0	Vacuolar ATPase assembly integral membrane protein VMA21 OS=Gallus gallus OX=9031 GN=VMA21 PE=3 SV=1
Q3ZAQ7	Vacuolar ATPase assembly integral membrane protein VMA21 OS=Homo sapiens OX=9606 GN=VMA21 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010671 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09446 all species →	VMA21	VMA21-like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019013 all species →	Family	Vacuolar ATPase assembly integral membrane protein Vma21	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31792 all species →	VACUOLAR ATPASE ASSEMBLY INTEGRAL MEMBRANE PROTEIN VMA21	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005789 all species →	Cellular Component	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K23952	VMA21; vacuolar ATPase assembly integral membrane protein VMA21	-	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_026607-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

36.0Max TPM

15.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.18	35.43
polyp at pH7 6	18	18	12.98	23.53
coral polyp · control treatment	16	16	19.99	32.30
coral polyp · oil and dispersant treatment	16	16	18.41	35.78
coral polyp · oil treatment	16	16	16.56	24.81
coral polyp · dispersant treatment	16	16	13.09	23.03
Polyp	10	10	16.66	35.99

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.43
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.24
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.23
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.16
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.89
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.45
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.42
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.24
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.83
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.62
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.55
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.54
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.36
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.70
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.63
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.42
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.23
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.23
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.53
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.49
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.62
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.01
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.14
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.85
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.09
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.50
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.93
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.48
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.26
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.19
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.77
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.62
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.40
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.38
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.54
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.83
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.30
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.51
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.71
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.91
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.06
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.97
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.94
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.85
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.88
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.42
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.99
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.08
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.85
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.16
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.29
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.87
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.78
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.60
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.44
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.51
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.06
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.81
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.68
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.83
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.56
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.16
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.91
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.03
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.90
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.50
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.20
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.81
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.97
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.55
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.23
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.08
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.14
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.55
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.43
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.86
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.22
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.94
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.76
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.49
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.17
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.03
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.05
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.23
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.54
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.33
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.09
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.23
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.39
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.12
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.01
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.93
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.59
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.74
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.27
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.69
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	35.99
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	25.78
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	20.50
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	18.96
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	15.41
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	15.32
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.72
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.56
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.78
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	6.62

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.