Gene detail

Detailed information of OS493_033639-T1 in Lophelia pertusa

Genomic Location: scaffold_269:387390...393152
NR annotation: KAJ7352828.1, Elongation factor 1-delta [Desmophyllum pertusum]
Species Lophelia pertusa · 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
Q4R3D4	Elongation factor 1-delta OS=Macaca fascicularis OX=9541 GN=EEF1D PE=2 SV=2
P29692	Elongation factor 1-delta OS=Homo sapiens OX=9606 GN=EEF1D PE=1 SV=5
Q9YGQ1	Elongation factor 1-beta OS=Gallus gallus OX=9031 GN=EEF1B PE=2 SV=3

Gene family

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

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10587 all species →	EF-1_beta_acid	Eukaryotic elongation factor 1 beta central acidic region	Domain	Interproscan
PF00736 all species →	EF1_GNE	EF-1 guanine nucleotide exchange domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001326 all species →	Conserved_site	Translation elongation factor EF1B, beta/delta chains, conserved site	Interproscan
IPR036219 all species →	Homologous_superfamily	Translation elongation factor eEF-1beta-like superfamily	Interproscan
IPR018940 all species →	Domain	Elongation factor 1 beta central acidic region, eukaryote	Interproscan
IPR049720 all species →	Family	Translation elongation factor EF1B, beta/delta subunit	Interproscan
IPR014038 all species →	Domain	Translation elongation factor EF1B, beta/delta subunit, guanine nucleotide exchange domain	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 OS493_033639-T1 across 110 RNA-seq samples of Lophelia pertusa. 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.

110Samples

110TPM > 0

7Conditions

1,327.0Max TPM

679.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	918.97	1,327.04
polyp at pH7 6	18	18	908.28	1,166.20
coral polyp · control treatment	16	16	559.64	937.10
coral polyp · oil and dispersant treatment	16	16	487.61	800.07
coral polyp · oil treatment	16	16	614.50	976.15
coral polyp · dispersant treatment	16	16	413.11	738.00
Polyp	10	10	860.94	1,120.86

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,327.04
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,285.33
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,133.83
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,089.83
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,019.23
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,009.92
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	955.96
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	946.55
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	820.53
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	816.42
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	815.55
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	813.31
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	808.36
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	785.49
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	772.85
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	768.01
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	703.69
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	669.62
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,166.20
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,138.43
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,072.70
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,037.71
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,015.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	995.13
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	991.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	979.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	951.44
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	950.87
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	939.98
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	937.72
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	769.26
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	747.08
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	668.17
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	667.71
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	663.72
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	655.77
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	937.10
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	766.79
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	660.66
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	643.37
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	600.96
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	584.85
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	565.23
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	543.03
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	529.88
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	511.56
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	503.22
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	487.40
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	465.20
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	427.74
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	394.60
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	332.72
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	800.07
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	560.05
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	539.81
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	537.31
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	529.32
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	524.16
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	495.20
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	495.12
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	457.07
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	454.43
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	450.47
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	415.57
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	411.85
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	399.01
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	382.60
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	349.67
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	976.15
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	804.37
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	755.24
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	738.39
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	660.95
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	628.75
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	608.24
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	570.25
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	560.01
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	557.02
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	547.01
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	546.53
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	540.22
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	462.56
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	452.65
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	423.69
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	738.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	533.19
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	531.18
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	484.15
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	471.17
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	424.27
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	421.35
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	408.41
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	402.77
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	386.11
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	349.31
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	343.05
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	298.89
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	282.27
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	281.71
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	253.87
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1,120.86
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1,074.89
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1,034.53
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	954.76
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	949.14
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	928.89
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	823.51
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	678.88
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	598.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	445.92

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 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.