Gene detail

Detailed information of BRAKERKREP00000023335.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: WP_053246308.1, MULTISPECIES: cytochrome c oxidase subunit II [unclassified Achromobacter]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q03736	Cytochrome c oxidase subunit 2 OS=Cereibacter sphaeroides OX=1063 GN=ctaC PE=1 SV=2
P08306	Cytochrome c oxidase subunit 2 OS=Paracoccus denitrificans OX=266 GN=ctaC PE=1 SV=1
O47496	Cytochrome c oxidase subunit 2 OS=Metridium senile OX=6116 GN=COII PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0012824 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13442 all species →	Cytochrome_CBB3	Cytochrome C oxidase, cbb3-type, subunit III	Domain	Interproscan
PF00116 all species →	COX2	Cytochrome C oxidase subunit II, periplasmic domain	Domain	Interproscan
PF02790 all species →	COX2_TM	Cytochrome C oxidase subunit II, transmembrane domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR045187 all species →	Family	Cytochrome c/quinol oxidase subunit II	Interproscan
IPR008972 all species →	Homologous_superfamily	Cupredoxin	Interproscan
IPR036257 all species →	Homologous_superfamily	Cytochrome C oxidase subunit II, transmembrane domain superfamily	Interproscan
IPR036909 all species →	Homologous_superfamily	Cytochrome c-like domain superfamily	Interproscan
IPR014222 all species →	Domain	Cytochrome c oxidase, subunit II	Interproscan
IPR009056 all species →	Domain	Cytochrome c-like domain	Interproscan
IPR034210 all species →	Domain	Cytochrome c oxidase subunit 2, C-terminal	Interproscan
IPR011759 all species →	Domain	Cytochrome C oxidase subunit II, transmembrane domain	Interproscan
IPR002429 all species →	Domain	Cytochrome c oxidase subunit II-like C-terminal	Interproscan
IPR001505 all species →	Binding_site	Copper centre Cu(A)	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22888 all species →	CYTOCHROME C OXIDASE, SUBUNIT II	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004129 all species →	Molecular Function	cytochrome-c oxidase activity	Interproscan
GO:0042773 all species →	Biological Process	ATP synthesis coupled electron transport	Interproscan
GO:0009055 all species →	Molecular Function	electron transfer activity	Interproscan
GO:0020037 all species →	Molecular Function	heme binding	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0022900 all species →	Biological Process	electron transport chain	Interproscan
GO:0005507 all species →	Molecular Function	copper ion binding	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
K02275	coxB, ctaC; cytochrome c oxidase subunit II	EC:7.1.1.9	Oxidative phosphorylation	ko00190	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000023335.1 across 29 RNA-seq samples of Hydra viridissima. 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.

29Samples

10TPM > 0

7Conditions

23.0Max TPM

4.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	2	1.50	16.29
Whole	6	5	15.65	22.99
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	5.57	5.57
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	6.93	6.93
symbioic hydra M9 strain · symbioic hydra rep1	1	1	2.75	2.75
symbioic hydra M9 strain · symbioic hydra rep2	1	0	0.00	0.00
unannotated	1	0	0.00	0.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	16.29
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	10.62
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134058	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134062	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134063	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	22.99
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	21.19
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	18.26
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	15.98
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	15.51
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	0.00
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	5.57
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	6.93
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	2.75
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	0.00
ERR13389755	unannotated	not recorded	not recorded	not recorded	ERP162636	0.00

Source: CnidoSite RNA-seq expression matrices (HVIRI_TPM, StringTie quantification over 29 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.