Gene detail

Detailed information of XP_032220197.1 in Nematostella vectensis

Genomic Location: NC_064046.1:12648330...12660487
NR annotation: XP_032220197.1, synaptic vesicle membrane protein VAT-1 homolog isoform X1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032364306.2

CTAAATTGCTGTATTCACACAGGATCTTTCAAAGCACTGAAAATACCCTGACAAAACTATTACTCAAGCGAATCACGGGAGATGGGAATCTAAGGGATTGTACGGATTATTTTTTTGGCGGGTAAAATTACGGAAACTCGGTGAGAGGTCGAGAGTTCACATGTAATTTATCGCGGTGCATTGTTGGTGTTAGCCTCTCACGGGAAGATGGCGGAGACAGAACCAAAGGATACGAGCGAAGGAACTcaaacagaaacaaaagaTGAGGCAGAACCAGTAACAGAACAACCGCCTAAGGAAGTCCAACCAGAGCTGCATTCAATGCGCAGTGTGGTTTTGACCGGCCATGGCGGAAATAACAAAATTAAGGTTGAAAAGTATGCAAGACCGAAGCCCATGCAAGGACAAGTTGTGGTGAAAGTGCACGCATGTGGTGTCACCTTTGCAGACTTGCTCCAAAGGCAAGGTCATTTCCCCCTAGCCCCCAAGCCGCCTTATGTGTGCGGATTTGAGTGTTCAGGAGTTGTGGAGGAGTTGGGAGAGGAAGTTACAGGAATTGATGTTGGTGCTCGTGTCATCTGCCTAGCACCATATGGTATGTGGACGGAATATGCCTGTGTAGATGCCAAAATGTGCTATGTGATGCCGGAGGCCATGACATTTGAGGAAGGGGCAGCCATCCCGATAACGTACCTCACCGCTCACCTTATCCTTTTTCATCTGGGAAATCTCGGCCTGCGAAAAAGTGTTCTAGTTCACATGGCAGCTGGTGGCGTGGGTACTGCAGTGACTCAGATCTGCAAGTCAGTGGAGGGTGTGACAGTGTTTGGGACTGCATCAGAGAATAAACATGAAGCCATCCAGGCACAAGGTGTTACTCATCCAATTGACTACAGGAAAGAGGATTATGTCAAAAAAGTCAGGGAGATCAGTCCTGATGGGGTTGACTTAGTCCTTGATCCTTTGGGAGGTTCTGAGACGAAAAGATGCTACGACCTTCTCAAGCCCATGGGAGCCTTAATCCATTATGGCAATGCAGCTGAGAACAAGGGGATGTTTAAGTGGTTCTCTGGTGCAAGCTTTCAGCCATCAAAGATGATGTCCGATAATGCTACAGTTTGTGGATTTAGTATACTAAGGCTGTTTAATCAACATGAACTTCTGAACACAACAATGGGTGAAGTAATGAAGCTCTACAATGAGGGCTTTGTCAAGCCAGTCATTGACAGTGTCCTTGCTCTTGAGGAGGCGGGAAAAGCCATGCAGAAAATGCATGATCGCAAGAATATTGGCAAAATGGTGCTCTCCCCTATGAAGGAACCAGAACCAGAACCTGAGCCAGTAGAACCCCCCAAAGACAAACACAAGAAGAAGGGCAAGAAGGGCAGTGacgaggagggggagggggaggggaaagagGAAGAAGAGCAGAAACCTGAGGAAGCTGACGGTGGCAAGGAAGAGGGTGCTTCAGGAGAGGAGAAGAAAGAGGAAGAAGTCACCAAATCGGACGAGCAGAAGAAAAAGGACGAGGATTCAAAACCAGAGGAGGCAAAACCGGAAGAGCCAAAAGAAGATGAAAAGTCGAAGCCGGAAGAGACTAAGGCTGAAGAGGAGGCGAAACCGGAAGCGCCCAAGGCTGAAGAAGAGGCGAAACCGGGAGAAACAAAGGTGGAAGAGGAAGCCAAACCGGATAGTTCTGAAGTTGACAGCAAAATGTAGAGACTAGTAGtgTCCACGACCCAAGGCACAATGAACTCTAGTGTAGCTCAAAATCCCTCTCGCCTGGTAGTGAACTGACATTTGATAGACCAGAGATTACTAAAGGTCAGATGAGATAAGATAGATGAATTTCCCATGACAAGGATCTCTCTCATTCCCACAACTAGAAACGTATATATTatccaaaaaaaaaggttagaGGTAGACCTGCTatgaattatatttttttcgccGATAGGATTGATAAGCTGCGCGAGTATGAATTGGCGTTTACCCCctgaggaaaaaaaagaaacgttACTGTCTGCAAACACGCCTCGGCCGTGTATCTGAGAAAACAAAGTCTATATCTCTGGATTCTATTACTGCTCGTTAAGTAAGATTCTCTAAACGCTTCTGTTGGAATTATAGCTTTTGGTGttgttttttgcttttttttttggtcagtCATGTTGTAGCTAGTTTTTATGTGATGACTGTTACGATTTTAACAACCAACTCACGAAAGAATTGTAACGCTTTAGTTAGGCGCGTGTTTGGGGACTGTCTGGTTTCGCCCCTCTTATTTCTGTTGGACTTATTATTAACAGAAGATTACTTTCTTTTATTCTTGTGATTAAATATATCCAAATTTAACTAAAAGTTACAATAGTTTCATCCTAATATAAAAAGAATTATAACAAATTTATTAGTTTATGATAAACTATTTCTATTGTAAGATGTCATTTAaacaaataatgtccttaAAAGAGCAAATTTTCGGCTTATGCCAAATATTTTCGATTTAAAAGCAATATGTCAACTTAGGGAGCTGGTtggtaaaataaaattattatgtGCATTTTCCA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8JFV8	Synaptic vesicle membrane protein VAT-1 homolog OS=Danio rerio OX=7955 GN=vat1 PE=2 SV=1
Q99536	Synaptic vesicle membrane protein VAT-1 homolog OS=Homo sapiens OX=9606 GN=VAT1 PE=1 SV=2
Q3MIE4	Synaptic vesicle membrane protein VAT-1 homolog OS=Rattus norvegicus OX=10116 GN=Vat1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009493 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13602 all species →	ADH_zinc_N_2	Zinc-binding dehydrogenase	Domain	Interproscan
PF08240 all species →	ADH_N	Alcohol dehydrogenase GroES-like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011032 all species →	Homologous_superfamily	GroES-like superfamily	Interproscan
IPR013154 all species →	Domain	Alcohol dehydrogenase-like, N-terminal	Interproscan
IPR020843 all species →	Domain	Polyketide synthase, enoylreductase domain	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR052100 all species →	Family	Synaptic vesicle ATPase and mitochondrial regulator	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR44054 all species →	SYNAPTIC VESICLE MEMBRANE PROTEIN VAT-1 HOMOLOG-LIKE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016491 all species →	Molecular Function	oxidoreductase activity	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
K23167	VAT1; synaptic vesicle membrane protein VAT-1	-	Mitochondrial biogenesis	ko03029	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_032220197.1 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

48TPM > 0

16Conditions

132.4Max TPM

95.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	117.01	127.92
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	105.54	132.42
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	105.54	124.40
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	109.23	123.38
whole 6 week old aboral regenerate · regenerate uncut	3	3	89.14	108.91
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	97.20	102.19
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	116.18	127.88
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	76.80	89.79
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	64.21	79.76
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	70.92	76.12
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	82.32	91.27
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	107.05	126.39
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	101.62	109.17
whole 6 week old aboral regenerate · regenerate 48hpa	3	3	91.89	100.24
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	100.54	115.29
whole 6 week old aboral regenerate · regenerate 12hpa	3	3	91.35	105.70

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	127.92
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	114.67
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	108.45
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	132.42
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	101.11
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	83.10
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	124.40
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	97.45
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	94.77
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	123.38
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	102.67
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	101.64
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	108.91
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	81.27
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	77.24
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	102.19
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	99.47
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	89.94
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	127.88
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	114.58
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	106.07
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	89.79
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	78.94
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	61.65
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	79.76
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	60.70
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	52.16
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	76.12
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	68.66
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	67.97
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	91.27
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	86.35
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	69.33
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	126.39
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	104.68
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	90.08
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	109.17
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	100.18
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	95.52
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	100.24
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	99.64
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	75.79
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	115.29
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	96.76
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	89.56
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	105.70
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	95.96
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	72.38

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.