Gene detail

Detailed information of CAB4007034.1 in Paramuricea clavata

Genomic Location: pcla8_s005800:2698...4275
NR annotation: CAB4007034.1, Elongation factor 1-beta, partial [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
P12262	Elongation factor 1-beta OS=Artemia salina OX=85549 PE=1 SV=3
P29693	Elongation factor 1-delta OS=Xenopus laevis OX=8355 GN=eef1d PE=1 SV=1
P34826	Elongation factor 1-beta OS=Oryctolagus cuniculus OX=9986 GN=EEF1B PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001854 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00736 all species →	EF1_GNE	EF-1 guanine nucleotide exchange domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR014038 all species →	Domain	Translation elongation factor EF1B, beta/delta subunit, guanine nucleotide exchange domain	Interproscan
IPR036219 all species →	Homologous_superfamily	Translation elongation factor eEF-1beta-like superfamily	Interproscan
IPR001326 all species →	Conserved_site	Translation elongation factor EF1B, beta/delta chains, conserved site	Interproscan
IPR049720 all species →	Family	Translation elongation factor EF1B, beta/delta subunit	Interproscan
IPR014717 all species →	Homologous_superfamily	Translation elongation factor EF1B/small ribosomal subunit protein bS6	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11595 all species →	EF-HAND AND COILED-COIL DOMAIN-CONTAINING FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003746 all species →	Molecular Function	translation elongation factor activity	Interproscan
GO:0006414 all species →	Biological Process	translational elongation	Interproscan
GO:0005085 all species →	Molecular Function	guanyl-nucleotide exchange factor activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0005853 all species →	Cellular Component	eukaryotic translation elongation factor 1 complex	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
K03232	EEF1B; elongation factor 1-beta	-	Translation factors	ko03012	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4007034.1 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

19TPM > 0

4Conditions

61.6Max TPM

20.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	5	18.69	48.99
apical branchlet · Temperature treatment at T0	6	6	19.09	61.65
apical branchlet · Temperature treatment at T25	5	5	19.42	37.07
apical branchlet · Control at T0	4	3	26.84	50.06

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	48.99
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	36.86
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	25.06
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.82
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.39
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	61.65
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	37.51
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	9.38
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	5.60
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.23
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.17
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	37.07
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	31.29
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	21.07
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	7.33
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.35
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	50.06
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	43.49
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	13.82
SRR19977443	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.