Gene detail

Detailed information of XP_001628890.2 in Nematostella vectensis

Genomic Location: NC_064045.1:6404640...6408667
NR annotation: XP_001628890.2, cytochrome c oxidase assembly protein COX11, mitochondrial [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_001628840.2

tctaaaaaaattgtaatgTTTTATAACATTCtcgaggaaaaaaaaattgagctCTTGACATTTTCGCGGAATTTGTTATTACAAACAAATAcggtatacctgtggtaaATCAGATGACCAGGCTTCCAAGCCAGAACGACGAgaatcaaaatggcggattaCGTAAGCTAAACTTTCTATCGTCAAAAATTTGACAACAATCCCATCTATATCTCATACCAAGGATACTATGTGAAAGAGCCGAAGTTAAAGTGTCAAAATGAGCTGGTTTTTAACGAAGTTTTTTGGAAACGGGACTTCGCGACATGTTTTTCAAAGTCTGAACAGAATAAGATCGAACAAGAGGAGTCTGTGCGGGACGTGGTCTCTGATTAATCAGACAAGGGGCGTCGCTTTTTTGCAGCAGCAGAGTATAAGGGCTGGTTTGCCTACAGGAATATGGCCTGGTAGAAGCGCTGGTGTGTTTCCCTTGTCCAAGTCGAATCCAGTCTTACGTTGCAATACTCGGTCTGCCTCTCTCCGGCCTGGGAGTGTGTTGAGGAACAAGACCACATCTATTTACATAGCGGCCGTGGCGGTAACGGTGCTTGGCTGTTCGTATGCTGCTGTCCCTCTTTACAGGCTTTACTGCCAAGCATCTGGCTTAGGTGGGACTGTCAAGCAAGCTGAATCGGGTGAAAAGCTTGAAAAGATGGAGAGAAAGCCAGAAAGATCGCTAAGAATAAGGTTCAATGCAGATACCAGTTCAACTATGCAGTGGAAGTTTAAACCACAGCAGTCAGAAGTCAGGGTAGCCCCTGGTGAGACGGCCCTTGCTTTCTACACCGCCACCAATGCCACGGATACAGCCATCACTGGCATCTCCACATACAATGTTATACCTTTTGAGGCTGGGCAGTACTTTAACAAGATACAGTGCTTCTGTTTTGAAGAGCAACGCCTCAACCCCAATGAACAAGTGGACATGCCAGTATTTTTCTACATTGACCCTGAGTTCACTGAAGACCCTGCCATGGCCAAGGTGGACACGATAACACTCTCCTACACATTCTTCGAGTCTAAAGAAGCAGAGAAAATGGGGCTATGATCACAATTAGCAAGACGCCATGATAACACTAAACTTGGCTAAAAAAATTTGGCTAAGATTAACATAAGTAATACCGTGTTTAAAGCTTCAATGGTACTGTACTTCTCTTAGACTACCACCTTTTAGATTTCTACCAGCCACTATCTATTAAAGCCGGCAATCCGACTTTGATGACATACAGTTTCTCAGGCTATGAAACCCAATGCAAACGTAGTGAATTAGATCCGCTATGATCAAAGTGAATTTGCATCCATCCTACAATTGAAACAGCTCAATTTTTTTAGAGTATTAAATAATAAAGGAAGAAttgcattttgaaaaataatattcaaaacaaatctaAAGTATCTACGAACTTTAAGTGACTACTTCATCTCAAGTGGAGATCTTCATAGAGGTACTGTACTGTCTAACCCGACAAGTGCTTGAAGGTTTGAAAAGGGGAGATAAGGACCTGGACTCTCTAAAAGTGAATGTGTGTAGAGCTGTCCACACAAACATGAAGCTCGTGTTAAAGATCCTGCTCAGAATCATTGACTTTCACTCTTGATAAAATGTCTAAACAGTCatcattatttaaaaaaagatgtcACTATGCATAAACTGAATTATCAAAGACACGGCTGTTCAACAAAAGGTTGTctacataaaaaaacattttcgatGTCCCAAATGTCATGTCACTCGTAAGATCCTTTTGGATTAGTTTAATTTCACTGTAATTTTGGATTTAGACCGCCGTAAACTATCCACCGTAACAGCTTTTAGCACACCTTGTACTACATTCACCGAAAGCGCATGTATTAGGAGTCACGTGACATTGGCATTTTGGTGGAGAACCTTTTTAAGATCAGctgtatgaaaatataaagtaGGATTGAGTTTCATAATTTTGTAAAGTATTAAAGAGTATCGATTTATAAGGTAATGAATATAATTTCTAGAATTAATGTTTCAGAGAAGTCAAATAAAGTAAATTTGAAATCA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9Y6N1	Cytochrome c oxidase assembly protein COX11, mitochondrial OS=Homo sapiens OX=9606 GN=COX11 PE=1 SV=3
Q5R7U6	Cytochrome c oxidase assembly protein COX11, mitochondrial OS=Pongo abelii OX=9601 GN=COX11 PE=3 SV=2
Q6P8I6	Cytochrome c oxidase assembly protein COX11, mitochondrial OS=Mus musculus OX=10090 GN=Cox11 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007503 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04442 all species →	CtaG_Cox11	Cytochrome c oxidase assembly protein CtaG/Cox11	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007533 all species →	Family	Cytochrome c oxidase assembly protein CtaG/Cox11	Interproscan
IPR023471 all species →	Homologous_superfamily	Cytochrome c oxidase assembly protein CtaG/Cox11, domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21320 all species →	CYTOCHROME C OXIDASE ASSEMBLY PROTEIN COX11-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005507 all species →	Molecular Function	copper ion binding	Interproscan
GO:0031304 all species →	Cellular Component	obsolete intrinsic component of mitochondrial inner membrane	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
K02258	COX11, ctaG; cytochrome c oxidase assembly protein subunit 11	-	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_001628890.2 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

41TPM > 0

16Conditions

24.8Max TPM

12.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	14.57	15.42
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	9.60	11.54
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	10.32	10.78
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	17.62	19.62
whole 6 week old aboral regenerate · regenerate uncut	3	3	10.11	11.67
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	19.18	24.21
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	8.68	13.87
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	13.99	15.05
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	10.80	18.25
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	15.14	17.69
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	15.63	17.33
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	9.10	15.67
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	18.31	24.77
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	8.53	14.03
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	9.66	15.61
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	4.84	14.53

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	15.42
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	14.55
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	13.74
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	11.54
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	9.10
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	8.15
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	10.78
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	10.36
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	9.81
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	19.62
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	18.68
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	14.55
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	11.67
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	10.75
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	7.92
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	24.21
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	17.11
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	16.21
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	13.87
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	12.18
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	15.05
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	14.86
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	12.06
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	18.25
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	14.15
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	17.69
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	15.17
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	12.56
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	17.33
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	15.64
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	13.92
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	15.67
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	11.63
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	24.77
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	15.42
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	14.76
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	14.03
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	11.57
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	15.61
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	13.38
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	14.53
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.