Gene detail

Detailed information of OS493_006519-T1 in Lophelia pertusa

Genomic Location: scaffold_13:3989532...3994119
NR annotation: KAJ7393535.1, Elongator complex protein [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
A1A5V9	Elongator complex protein 5 OS=Danio rerio OX=7955 GN=elp5 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005358 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10483 all species →	Elong_Iki1	Elongator subunit Iki1	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019519 all species →	Family	Elongator complex protein 5	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15641 all species →	ELONGATOR COMPLEX PROTEIN 5	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000049 all species →	Molecular Function	tRNA binding	Interproscan
GO:0002098 all species →	Biological Process	tRNA wobble uridine modification	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006400 all species →	Biological Process	tRNA modification	Interproscan
GO:0033588 all species →	Cellular Component	elongator holoenzyme 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
K11376	ELP5, IKI1; elongator complex protein 5	-	Transfer RNA biogenesis	ko03016	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_006519-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

109TPM > 0

7Conditions

57.9Max TPM

7.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.18	9.18
polyp at pH7 6	18	18	7.90	16.98
coral polyp · control treatment	16	16	9.63	43.87
coral polyp · oil and dispersant treatment	16	16	9.47	57.95
coral polyp · oil treatment	16	16	7.19	10.81
coral polyp · dispersant treatment	16	16	4.08	7.43
Polyp	10	9	8.39	19.46

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.18
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.61
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.96
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.82
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.65
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.26
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.16
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.69
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.13
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.98
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.86
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.25
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.82
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.73
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.40
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.37
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.10
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.20
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.98
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.60
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.37
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.35
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.07
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.88
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.35
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.26
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.57
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.11
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.08
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.75
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.79
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.34
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.42
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.42
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.71
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.05
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.87
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.81
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.02
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.54
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.42
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.69
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.50
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.73
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.50
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.44
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.40
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.24
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.91
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.53
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.79
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.70
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.95
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.19
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.49
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.27
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.92
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.38
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.76
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.17
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.54
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.49
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.84
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.59
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.20
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.90
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.59
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.81
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.41
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.58
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.12
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.72
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.69
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.58
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.56
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.26
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.22
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.84
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.71
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.33
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.88
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.84
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.55
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.43
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.42
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.18
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.42
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.89
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.20
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.82
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.65
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.62
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.47
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.35
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.61
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.58
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.15
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	19.46
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.97
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.26
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.62
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.99
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.95
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.90
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.76
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.