Gene detail

Detailed information of OS493_006254-T1 in Lophelia pertusa

Genomic Location: scaffold_13:1362095...1373870
NR annotation: KAJ7393285.1, Eukaryotic translation initiation factor 5A-1 [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
P10160	Eukaryotic translation initiation factor 5A-1 OS=Oryctolagus cuniculus OX=9986 GN=EIF5A PE=1 SV=2
P62924	Eukaryotic translation initiation factor 5A OS=Spodoptera exigua OX=7107 GN=eIF-5A PE=2 SV=1
P62925	Eukaryotic translation initiation factor 5A OS=Spodoptera frugiperda OX=7108 GN=eIF-5A PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008051 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF21485 all species →	IF5A-like_N	Translation initiation factor 5A-like, N-terminal	Domain	Interproscan
PF01287 all species →	eIF-5a	Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR014722 all species →	Homologous_superfamily	Large ribosomal subunit protein uL2, domain 2	Interproscan
IPR001884 all species →	Family	Translation elongation factor IF5A-like	Interproscan
IPR048670 all species →	Domain	Translation initiation factor 5A-like, N-terminal	Interproscan
IPR020189 all species →	Domain	Translation elongation factor, IF5A C-terminal	Interproscan
IPR019769 all species →	PTM	Translation elongation factor, IF5A, hypusine site	Interproscan
IPR008991 all species →	Homologous_superfamily	Translation protein SH3-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11673 all species →	TRANSLATION INITIATION FACTOR 5A FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003746 all species →	Molecular Function	translation elongation factor activity	Interproscan
GO:0043022 all species →	Molecular Function	ribosome binding	Interproscan
GO:0045901 all species →	Biological Process	positive regulation of translational elongation	Interproscan
GO:0045905 all species →	Biological Process	positive regulation of translational termination	Interproscan
GO:0006414 all species →	Biological Process	translational elongation	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
K03263	EIF5A; translation initiation factor 5A	-	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_006254-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

616.4Max TPM

337.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	336.21	508.98
polyp at pH7 6	18	18	337.37	473.75
coral polyp · control treatment	16	16	370.22	509.48
coral polyp · oil and dispersant treatment	16	16	369.01	571.22
coral polyp · oil treatment	16	16	343.42	488.36
coral polyp · dispersant treatment	16	16	283.99	401.42
Polyp	10	10	314.77	616.42

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	508.98
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	463.84
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	384.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	371.79
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	367.98
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	366.26
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	348.09
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	342.92
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	304.84
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	304.04
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	302.97
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	300.23
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	296.15
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	295.48
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	278.78
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	274.19
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	271.31
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	269.23
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	473.75
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	406.51
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	405.78
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	401.98
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	398.13
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	392.89
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	384.78
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	365.03
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	343.02
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	330.63
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	321.40
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	316.23
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	311.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	308.02
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	267.68
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	222.60
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	212.09
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	210.50
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	509.48
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	425.52
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	424.40
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	421.75
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	416.88
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	414.82
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	409.30
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	407.35
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	378.44
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	378.14
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	372.10
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	330.10
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	313.07
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	298.70
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	244.14
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	179.41
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	571.22
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	450.26
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	431.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	403.99
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	388.64
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	387.16
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	382.85
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	374.10
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	369.07
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	348.35
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	344.82
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	335.92
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	331.88
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	327.36
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	251.35
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	205.38
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	488.36
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	434.81
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	433.47
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	416.90
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	408.31
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	406.02
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	390.04
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	382.14
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	344.99
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	330.61
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	329.65
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	307.90
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	272.25
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	237.20
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	222.25
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.83
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	401.42
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	393.45
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	351.21
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	345.04
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	326.94
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	325.06
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	323.87
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	304.58
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	283.76
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	281.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	278.43
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	268.90
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	260.88
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	236.05
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	116.37
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.17
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	616.42
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	376.15
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	365.89
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	352.13
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	272.15
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	255.92
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	248.91
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	232.33
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	216.78
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	210.98

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.