Gene detail

Detailed information of XP_001634819.2 in Nematostella vectensis

Genomic Location: NC_064039.1:2758328...2764350
NR annotation: XP_001634819.2, V-type proton ATPase subunit B [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_001634769.3

ACGTCACTTCCTCGGTGTACGCATGCGTCAAGTGTTCGATCCAAAATGGCGCCTGTGCCGGGTGATTTGATGGATCTCTCAGAAGGCGACGCTTTCAAACAACACACTGCCGCTGTTACGAGAAATTATATATCCCAGCCTAGGCTTACGTACAAAACAGTCTCTGGTGTCAATGGACCTCTGGTCATCTTAGATAATGTCAAGTTTCCCAAATTTGCAGAGATTGTTACCCTCACACTCCAAGATGGCTCCCAGAGGAGTGGCGAAGTTCTAGAAGTTAGTGGTTCTAAAGCAGTTGTACAGGTGTTTGAGGGAACATCAGGGATTGACGCCAAGCACACAACATGTGAATTCACTGGTGACATTCTCAGGACCCCAGTGTCAGAGGATATGTTGGGCCGTGTTTTTAATGGCTCTGGTAAAGCTATCGATCGAGGGCCACCAGTCCTGGCAGAAGATTTCCTGGATATTCAAGGCCAGCCTATAAACCCCTGGTCTAGAATTTACCCAGAGGAAATGATTCAGACAGGGATTTCAGCTATTGACACAATGAACAGTATTGCTAGGGGGCAAAAGATCCCAATCTTTTCTGCTGCTGGTCTGCCCCATAACGATATTGCAGCCCAAATCTGTCGCCAGGCCGGCCTTGTGAAGTTTAACAAAGGTGTAATGGATGATCACGAGGACAACTTTGCTATCGTGTTCGCAGCTATGGGAGTGAACATGGAAACGGCTCGGTTCTTCAAACAGGACTTTGAAGAGAATGGATCTATGGAAAATGTGTGCCTCTTCCTCAATTTGGCTAATGACCCCACAATTGAACGTATCATCACCCCACGCCTGGCTCTGACCACAGCTGAGTTCCTTGCCTACCAATGTGAGAAGCATGTGCTAGTTATTCTGACAGACATGAGCTCCTATGCTGAAGCTTTGCGAGAGGTTTCAGCAGCTCGTGAGGAGGTTCCTGGTCGCCGTGGTTTCCCTGGTTATATGTACACTGATTTGGCGACTGTATATGAGCGTGCAGGCCGTGTAGAGGGAAGAAATGGATCAATCACGCAGATCCCTATTTTGACTATGCCTAACGATGACATCACCCATCCCATTCCAGATCTGACGGGGTACATCACGGAGGGGCAGATCTATGTAGACAGACAGCTTCATAACAGACAGATCTATCCGCCTATCAATGTGCTGCCATCACTGTCCAGATTGATGAAGTCTGCCATTGGAGAGGGCATGACCAGGAAGGACCATTCTGATGTTTCCAATCAGTTGTATGCTAACTACGCCATTGGCAAAGATGTTCAAGCCATGAAGGCTGTGGTAGGAGAGGAAGCTTTGACCTCTGAAGACTTGCTTTACTTGGAATTCCTCACTAAATTTGAGAAAAACCTCATAGCTCAAGgaacCTATGAAAACCGCTCAGTGTTTGAGTCTCTTGACATTGGCTGGTCACTGCTGCGTATCTTCCCTAAGGAAATGTTGAAGCGAATTCCACAATCCACCCTTGCAGAGTTCTACCCAAGAGATTCTAGACATTAGAAGTATTATAATGAAAGAATATCTCATCTACAGAGAAAAAATTACCTGTTTGAATGCAGGTTATCATTGATGTTGATGTAACCAGTTTGTTGTGGAACATTCTTATCTTGTTACATAGTAACTATCCTTGTTGAGCCATTAGTCTTTACATTTCAGGGTGGTTCACATGGTTATGAGAAACGTGCAAGGAAGAGTTGAAACCCATAAATTCACGAAATCATGGCCACCATGCAACTCATTGTGCTCATTTTCAACTTGCATGTATCTGTTGTATCTTTCTTACATAATTTTGGGTGTTCCAATTATTGCTTGGGTCATTATATAGGGTATAGCTGGGAGGTAGTAATCAAGCtacaatttagaaaataaCAGTAAATAAAATTCATTCTTGCAGTTCTATTGTCAAGTAGGTATGTGAagttataattaaaaaaatcaaaacaagaaaa

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P31401	V-type proton ATPase subunit B OS=Manduca sexta OX=7130 GN=VHA55 PE=2 SV=1
P31410	V-type proton ATPase subunit B OS=Heliothis virescens OX=7102 GN=VHA55 PE=2 SV=1
P31409	V-type proton ATPase subunit B OS=Drosophila melanogaster OX=7227 GN=Vha55 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006231 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02874 all species →	ATP-synt_ab_N	ATP synthase alpha/beta family, beta-barrel domain	Domain	Interproscan
PF00006 all species →	ATP-synt_ab	ATP synthase alpha/beta family, nucleotide-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR022879 all species →	Family	V-type ATP synthase regulatory subunit B/beta	Interproscan
IPR005723 all species →	Family	ATPase, V1 complex, subunit B	Interproscan
IPR020003 all species →	Active_site	ATPase, alpha/beta subunit, nucleotide-binding domain, active site	Interproscan
IPR004100 all species →	Domain	ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR000194 all species →	Domain	ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43389 all species →	V-TYPE PROTON ATPASE SUBUNIT B	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0033180 all species →	Cellular Component	proton-transporting V-type ATPase, V1 domain	Interproscan
GO:0046961 all species →	Molecular Function	proton-transporting ATPase activity, rotational mechanism	Interproscan
GO:1902600 all species →	Biological Process	proton transmembrane transport	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0046034 all species →	Biological Process	ATP metabolic process	Interproscan
GO:0007035 all species →	Biological Process	vacuolar acidification	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
K02147	ATPeV1B, ATP6B; V-type H+-transporting ATPase subunit B	-	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 XP_001634819.2 across 48 RNA-seq samples of Nematostella vectensis. 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.

48Samples

47TPM > 0

16Conditions

69.7Max TPM

46.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	60.83	67.01
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	40.32	49.29
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	31.34	37.22
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	44.70	52.15
whole 6 week old aboral regenerate · regenerate uncut	3	3	30.56	33.76
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	46.82	49.48
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	51.08	60.78
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	58.01	68.91
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	48.36	55.60
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	44.58	46.76
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	37.87	43.72
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	61.69	69.74
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	58.12	64.51
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	39.40	60.24
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	40.92	43.38
whole 6 week old aboral regenerate · regenerate 12hpa	3	3	47.42	61.15

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	67.01
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	66.40
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	49.07
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	49.29
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	38.78
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	32.88
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	37.22
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	29.14
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	27.65
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	52.15
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	42.85
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	39.09
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	33.76
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	32.44
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	25.47
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	49.48
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	47.91
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	43.07
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	60.78
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	47.39
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	45.09
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	68.91
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	57.59
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	47.53
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	55.60
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	45.53
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	43.96
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	46.76
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	45.88
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	41.11
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	43.72
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	35.18
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	34.70
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	69.74
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	62.78
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	52.55
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	64.51
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	55.06
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	54.78
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	60.24
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	57.95
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	43.38
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	40.97
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	38.40
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	61.15
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	41.00
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	40.13

Source: CnidoSite RNA-seq expression matrices (NVECT_TPM, StringTie quantification over 48 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.