Gene detail

Detailed information of CAB4028275.1 in Paramuricea clavata

Genomic Location: pcla8_s016338:6995...8325
NR annotation: CAB4028275.1, Cytochrome c [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P00013	Cytochrome c OS=Miniopterus schreibersii OX=9433 GN=CYCS PE=1 SV=2
P68097	Cytochrome c OS=Equus asinus OX=9793 GN=CYCS PE=1 SV=2
P68096	Cytochrome c OS=Equus quagga burchellii OX=89252 GN=CYCS PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004990 (this species only)

Pfam domain

No Pfam domain signature was detected for CAB4028275.1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR002327 all species →	Family	Cytochrome c, class IA/ IB	Interproscan
IPR036909 all species →	Homologous_superfamily	Cytochrome c-like domain superfamily	Interproscan
IPR009056 all species →	Domain	Cytochrome c-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11961 all species →	CYTOCHROME C	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0009055 all species →	Molecular Function	electron transfer activity	Interproscan
GO:0020037 all species →	Molecular Function	heme binding	Interproscan
GO:0005758 all species →	Cellular Component	mitochondrial intermembrane space	Interproscan
GO:0006122 all species →	Biological Process	mitochondrial electron transport, ubiquinol to cytochrome c	Interproscan
GO:0006123 all species →	Biological Process	mitochondrial electron transport, cytochrome c to oxygen	Interproscan
GO:0043280 all species →	Biological Process	obsolete positive regulation of cysteine-type endopeptidase activity involved in apoptotic process	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

No KEGG orthology assignment for CAB4028275.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4028275.1 across 21 RNA-seq samples of Paramuricea clavata. 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.

21Samples

8TPM > 0

4Conditions

63.5Max TPM

3.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	3	0.29	0.70
apical branchlet · Temperature treatment at T0	6	2	1.63	6.53
apical branchlet · Temperature treatment at T25	5	2	13.37	63.46
apical branchlet · Control at T0	4	1	0.11	0.43

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.70
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.60
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.42
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	6.53
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	3.28
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	63.46
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	3.40
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.43
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00

Source: CnidoSite RNA-seq expression matrices (PCLAV_TPM, StringTie quantification over 21 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.