Gene detail

Detailed information of XP_032224501.2 in Nematostella vectensis

Genomic Location: NC_064044.1:5951197...5960778
NR annotation: XP_032224501.2, medium-chain acyl-CoA ligase ACSF2, mitochondrial [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032368610.2

CACAGACCCCGTGATCTTGAAAGTCCTGAAGATCAAATGTTATGTCCCTGGCCTGTTGTCGACGTGTATCACATTCAAGTCTTATATCCTGACACGGATAGGTAAAATCGGACGCTGTACAAACAGACAAGCTATATACAAGCATTCTCTTCTTTGCTGAACTATAATGAACTCCAAGGAGCTGAGCTATGTTCACGTGCCTCACAAGCGCCCAATGACCCATTATGCACTGCACCAGTTACTAGACTCCATGGCCGAGCAAAGACGCGACACCGAGGCTCTTGTTATATACAACATGAAACTTGAGAGGGCCGCTATGACTTATGGGCAGTTAAAGGATTGGTCTCGCTATCTGGCAGCATCCTTACTCGATCTTGGTCTGTCACGTGGACAACACGTGCTTCTCATCGGCGCCAGCAGTATTCGGTTTGCGGTATCCTTTATGGCACTTCAGCGTTTTGGTGCAAACACTATTTTACTGGGACCTGGGGGGCTGTCTCAGGATAAAGTTGGTCAGATAAAAGATCTAAGAGTCCAAGCGGTTGTCTTCGACCCTGACATGCGCGAAACCCAGAGGCTGCAGCTAGCAAAAGGTATAAAGCAGTTGCTCTCTGATATTTCCAAGGAAACTGATCCAATACTTGTTTCCCTGGGAGATGTGACGTCATGCAAGTGCGTGACTGATTTGGATTCTCACATGTATGATGATCTGATTGTGCGTGGTCAAGAAAGTGGGCTTCTACACAAGTTAACGCTAGCCGAAGCGGAAGTACAAATTGATGACCCTATCGTGATAGTCTACACATCCGGAAGCACAGGGTCCCCAAAACTTGTCCAGCACACATGCTTCAGTCGCACGTGCTCAGTTTTAACCTGGAAAGACATCTCTCAGGATATTCGCGCTGAACGCGAGATAAAGTATTTTGACCGACCGATGGCGTGGGGCTGGGGCATGCTTACCTTATGCTGTGTAGTGAACGATTCTACAATCGTGTGGGTGCCAACCGAGATAACTCTAAATGAAGAAATGAACGAAGTCGCGTTTGAAATCATGCAGAATGAAAAGTGCACCAATGGCATCTTTAGCGCTGCACTGATGCATAAGCTGACCAAGGACAAGCTGCATTTAAAGTACGACCTTTCAAGCTTCGAGGAATTCCATTACGGTGGACAAGTATACCCCAAGACCATGATATCAAGTGTGTTAGAAGGCCTACCGTTCGCTAGAGGTTTCCATGTATTTGGATCAACTGAAGGGATGTTACAAGCCGtgaaaattattattaaagatggaatgaatgatgatgattttggaGAGTTGTCAGTGGTTCCTGGGTGCGAGGTGAAAACCGTTGGCGACGGGGACGAGGTGGTGCCGCGAGGAACGCCTGGTGAAATATGCGTTCGGAGTGCCATGGTTTTCTCAGAATACGTTGGTAACCCCGAGGCAACCAAGCAAGCAAAAACAGCCACTGGCTGGTTCCGACTGGGAGATATCGGTGTTATGGATGAATCAGGAAAAGTCAAGGTTCTTGGGCGTAAGAAAGATTTCATTAAACGCGCAACATTAAAGATATCTCCATTGCAAATCGAGAAAGTGATTCTAGGACATGCCGATGTGTCAGACGCTGTAGTCTTCGGTGTTCCTGATCAGCAGCTTCACGAGGAGATTTGCGCTTGCGTTATTCTTAAAGCCGCCAACAATGATCGAGGTTTAGAAGTGAGGCTGGCAGAGCTGGAGGCCTGGTGCTCAGAGCAATTTCCTCCGGAAGCCGATGGTTTGAGTTTGAAGCCTCGATATATGTTATTGGTGAAGACCTTCCCATCTGGGAACACGGGAAAAGTGGACCGCCGAGCGATGAGGGACTTGGCGATGCAGAAGCTTGGGATATCTGAGTAGATCACAGTAATCAGGCAGTTCACATCTGAATgtgataaacaaatatatttttactcACAGTTTGCAGGAGATAAAGAAAACCATACATAAAACATATTCAAGAAACATGATAAGTGTGAGCATTTTTTCGGTGCCGATGTGACCCATTTCACATTTCCATAATTCCAGCATGACTTTTCATTATACCGGAGTAAACATGTGTAGATTCAAGGCAACTCTACTCCAAAGAACCTTGTCGCATACAGGTGGCTCCGACGGGACAGTGAATGGGACAGGATGTCAGTGAattctaaataaaataaacggAAATTCATTACAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A0R5G1	Acetyl-coenzyme A synthetase OS=Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155) OX=246196 GN=acsA PE=3 SV=1
Q9SMT7	Oxalate--CoA ligase OS=Arabidopsis thaliana OX=3702 GN=AAE3 PE=1 SV=1
M4IQQ7	Probable CoA ligase CCL9 OS=Humulus lupulus OX=3486 GN=CCL9 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003010 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00501 all species →	AMP-binding	AMP-binding enzyme	Family	Interproscan
PF13193 all species →	AMP-binding_C	AMP-binding enzyme C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR020845 all species →	Conserved_site	AMP-binding, conserved site	Interproscan
IPR000873 all species →	Domain	AMP-dependent synthetase/ligase domain	Interproscan
IPR045851 all species →	Homologous_superfamily	AMP-binding enzyme, C-terminal domain superfamily	Interproscan
IPR042099 all species →	Homologous_superfamily	ANL, N-terminal domain	Interproscan
IPR025110 all species →	Domain	AMP-binding enzyme, C-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR42814 all species →	AMP-BINDING DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

No Gene Ontology signature was recorded for XP_032224501.2 in Nematostella vectensis.

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
K23617	ACSF2; medium-chain acyl-CoA ligase, mitochondrial	EC:6.2.1.2	Lipid biosynthesis proteins	ko01004	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_032224501.2 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

37TPM > 0

16Conditions

6.7Max TPM

3.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	2	2.88	5.30
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	3.85	5.26
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	4.90	5.30
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	4.44	5.18
whole 6 week old aboral regenerate · regenerate uncut	3	3	4.47	5.08
whole 6 week old aboral regenerate · regenerate 4hpa	3	1	1.18	3.54
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	3.64	5.54
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	4.35	5.63
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	2.58	4.61
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	4.77	6.70
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	3.69	4.04
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	2.95	4.60
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	4.70	5.52
whole 6 week old aboral regenerate · regenerate 48hpa	3	1	1.49	4.48
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	3.02	4.61
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	1.77	5.30

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	5.30
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	3.34
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	0.00
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	5.26
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	3.91
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	2.37
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	5.30
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	4.79
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	4.62
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	5.18
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	4.37
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	3.76
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	5.08
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.55
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.78
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	3.54
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	5.54
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	5.37
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	5.63
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	4.20
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	3.20
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	4.61
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	3.14
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	6.70
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	3.93
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	3.67
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	4.04
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.68
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.36
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	4.60
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	4.25
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	5.52
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	5.00
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	3.59
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	4.48
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320871	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	4.61
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	4.45
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.00
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	5.30
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00

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.