Gene detail

Detailed information of XP_032235102.2 in Nematostella vectensis

Genomic Location: NC_064045.1:6529524...6547295
NR annotation: XP_032235102.2, mitochondrial Rho GTPase 1-A isoform X2 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032379211.2

GAGTAGAGACTGGTACCCACTCGGCGGCAAAGAGCGGCAAACATGGAGTCTGTAAAATGACCAGCCAAAATGCTGGATTTTTGCGTCCAGAACTCGATTATTTTCTAATTTAGTCAGCCTAACATCTCACCCAGGCATAGAAGAAGTCGAAGCTCGCGTCACTTTGTCCATCACTGTGTTAGTCCTTGCAGAATATATTCTTTTCGAACCGCAGACTTCGAAATTCAAAATGTCGACGCGAGATGTTCGTATTTTGCTTGTTGGGGATTCTCAAGTAGGAAAGACGTCGCTTATACTGTCACTTGTAAGCGAAGAGTTCCCAGATGAGGTGCCTATGAGGGCTGAAGAAATCACCATTCCTGCCGATGTAACACCTGAGAAAGTGCCAACTCACATTGTAGACTATTGTGAGGATGAACAGACAGATGATATACTTGCAGATGAGATTGTGAAGGCCAATGTTGTCTGCATAGTCTATGATGTCACAGATGAAGAGACTATAGAGAGGATAACAACCTTCTGGCTGCCACTGATTCGAAGTGTCACTGAAGATGAGGAACATATTAAACCTGTCGTCATCGTTGGTAATAAGtCTGATCTATCTGATACTAGTACAATGGATATTGTTCTCCCTATAATGAATGACTACTCAGAAGTTGAGACTTGTGTTGAGTGCTCAGCCaagaatttgaaaaatatctCTGAGATGTTCTACTATGCCCAGAAGGCAGTGCTTCACCCGACAGCGCCATTGTATTCTCCTGATACCAAACAGATAAAGCCTTTATGTGAGATGGCACTTACAAGAATATTTAAGATATCAGATGCTGATGGGGATGGCATTTTGAATGACACAGAACTTAATAGCTTTCAGAAGAGATGTTTTAATTCGCCACTTCAAGGGCAAGGTCTACAAGATGTGAAGAACGTTGttagaaaaaatatagaagGAGGTATCAGAAATGGAGGCCTTACCCTAAAAGGCTTTGTGTTTCTACACACGCTTTTTATCCAAAGGGGCAGGCATGAGACCACATGGGCGGTGCTTAGAAAATTTGGATATGGAGAGGATCTACAGCTAAGGTCTGACTACCTCTGTCCAAAAGGTATTGACGTAGGCACAGACAGTACAGTGGAGCTATCTGATGCTGGTTATGAGTTTCTTATTGATCTGTTCAACAAATACGACAAGgatcAAGATGAAGCTTTGAGTCCTGTAGAGTTAGAGGAACTGTTTGAGATGTGTCCCACAAATCCATGGGGCGATGAAGTGATACATGCTGCTGAGACCAACAGTAAGGGATGGATAACCCTACAGGGGTTTCTAGCTCAGTGGACACTGACTACCTTTTTGGACTACACTCGCACCCTGGCCTATCTGGCTTACTTTGGCTATGCACATGGTGAAGTGGAGACCCAACTATCAACAGCAATAGCAGtcactagaagcaaatcCATTGATATCCAGAAGAAGTCGACCACTAGATCGGTATTCCAGTGCTATGTCTTTGGACCACCAGGAGTGGGAAAGACAACATTTTTACAGTCGTTTCTTGACCGATCCCTTGAAAATTCGGACCTCGAGCATCTTACCACGCCGTATGTTATCAATCTTGTAGAAGtacaaagacaagagaaaTATCTAGTGTTACGCGAGATCGAGTGGGAGAATTCAGGGCTTCTGCTACATGATAGGAGATGTGACGTGGCTTGCTTCTTGTACAACTCAAATGATGCGGCTTCATTTTCGCAGATTGTACAACTCAGAGAGAAGTTACCAAAGACTCTACCGTGTTTATTCGTCGCAACAAAGAGTGACCTAACGACAGTGAAACAGGAATATGAGCAACAGCCTCTGATGTATACGACGCTGAATAAACTtccaccaccacagCCGTTCTCCATAAATGGACCGCCAGAGggcaacaaaaaaatatattccaaACTTGCGCAAATGGCTGTGTACCCGCATCTTTGCGGCCCTAATGCGGACACAATGGCTACCTTCTGGGTCATCGCTGGAGTCGGTGCAGCTGCTGCAGCTGTTATTGGTTTCCTTGGTTACCGATACTTACGGAAATCAGCTAATGGACTTTAACCATGGTGACAGACCAATGTTCAATCGaaGTCGGGTAAGATGACGGTACATCCCCATAATGCAAAGCGATTTGCGAAGTTCAGCCAAGTGCGACATGAACGTGGAGACTATAACGTGCTAGAGAAACTATATAAAGACTTTAACGTATTGGAATCTAATTtcttaaaggttttatttttctgtgaATTTTAAGTGCGTTCGAAAGAGGAATGATTCTTTGAATAAAGAATTCGGTGAGATTA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6NVC5	Mitochondrial Rho GTPase 1-A OS=Danio rerio OX=7955 GN=rhot1a PE=2 SV=1
Q2HJF8	Mitochondrial Rho GTPase 1 OS=Bos taurus OX=9913 GN=RHOT1 PE=2 SV=1
Q8BG51	Mitochondrial Rho GTPase 1 OS=Mus musculus OX=10090 GN=Rhot1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003988 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00071 all species →	Ras	Ras family	Domain	Interproscan
PF08355 all species →	EF_assoc_1	EF hand associated	Family	Interproscan
PF08356 all species →	EF_assoc_2	EF hand associated	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR021181 all species →	Family	Mitochondrial Rho GTPase	Interproscan
IPR001806 all species →	Family	Small GTPase	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR020860 all species →	Domain	MIRO domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR003578 all species →	Family	Small GTPase Rho	Interproscan
IPR013566 all species →	Domain	Mitochondrial Rho GTPase 1/3, EF hand associated, type-1	Interproscan
IPR013567 all species →	Domain	EF hand associated, type-2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24072 all species →	RHO FAMILY GTPASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0005741 all species →	Cellular Component	mitochondrial outer membrane	Interproscan
GO:0007005 all species →	Biological Process	mitochondrion organization	Interproscan
GO:0006897 all species →	Biological Process	endocytosis	Interproscan
GO:0007163 all species →	Biological Process	establishment or maintenance of cell polarity	Interproscan
GO:0007264 all species →	Biological Process	small GTPase-mediated signal transduction	Interproscan
GO:0019901 all species →	Molecular Function	protein kinase binding	Interproscan
GO:0032488 all species →	Biological Process	Cdc42 protein signal transduction	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
K07870	RHOT1, ARHT1; mitochondrial Rho GTPase 1	EC:3.6.5.-	GTP-binding proteins	ko04031	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_032235102.2 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

46TPM > 0

16Conditions

42.6Max TPM

24.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	24.50	29.96
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	24.97	29.40
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	25.17	25.94
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	19.87	20.27
whole 6 week old aboral regenerate · regenerate uncut	3	3	23.52	26.52
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	13.37	21.70
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	27.95	29.04
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	25.54	30.82
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	20.98	26.38
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	22.41	25.74
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	23.76	24.27
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	33.65	42.61
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	31.16	36.15
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	18.82	30.19
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	27.62	30.02
whole 6 week old aboral regenerate · regenerate 12hpa	3	3	25.89	31.59

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	29.96
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	23.48
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	20.06
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	29.40
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	24.45
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	21.05
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	25.94
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	25.16
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	24.42
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	20.27
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	19.72
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	19.60
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	26.52
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	22.55
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	21.50
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	21.70
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	18.40
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	29.04
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	28.37
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	26.43
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	30.82
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	26.45
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	19.36
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	26.38
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	22.99
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	13.57
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	25.74
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	24.06
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	17.44
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	24.27
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	24.06
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	22.95
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	42.61
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	32.26
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	26.09
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	36.15
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	29.65
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	27.69
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	30.19
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	26.28
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	30.02
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	29.46
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	23.38
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	31.59
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	23.64
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	22.43

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.