Gene detail

Detailed information of OS493_011012-T1 in Lophelia pertusa

Genomic Location: scaffold_27:3094179...3104979
NR annotation: KAJ7380295.1, Diphthamide biosynthesis protein 2 [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
A7SKJ3	2-(3-amino-3-carboxypropyl)histidine synthase subunit 2 OS=Nematostella vectensis OX=45351 GN=dph2 PE=3 SV=1
A4QN59	2-(3-amino-3-carboxypropyl)histidine synthase subunit 2 OS=Danio rerio OX=7955 GN=dph2 PE=2 SV=1
Q5ZKI2	2-(3-amino-3-carboxypropyl)histidine synthase subunit 2 OS=Gallus gallus OX=9031 GN=DPH2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003958 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01866 all species →	Diphthamide_syn	Putative diphthamide synthesis protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016435 all species →	Family	Diphthamide synthesis DPH1/DPH2	Interproscan
IPR042263 all species →	Homologous_superfamily	Diphthamide synthesis DPH1/DPH2, domain 1	Interproscan
IPR042265 all species →	Homologous_superfamily	Diphthamide synthesis DPH1/DPH2, domain 3	Interproscan
IPR010014 all species →	Family	Diphthamide synthesis DHP2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10762 all species →	DIPHTHAMIDE BIOSYNTHESIS PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0017183 all species →	Biological Process	protein histidyl modification to diphthamide	Interproscan
GO:0090560 all species →	Molecular Function	2-(3-amino-3-carboxypropyl)histidine synthase activity	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
K17866	DPH2; diphthamide biosynthesis protein 2	-	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_011012-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

11.8Max TPM

5.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.56	7.18
polyp at pH7 6	18	18	6.46	11.84
coral polyp · control treatment	16	16	6.11	9.94
coral polyp · oil and dispersant treatment	16	16	4.11	7.15
coral polyp · oil treatment	16	16	6.23	9.03
coral polyp · dispersant treatment	16	16	3.34	7.91
Polyp	10	9	5.44	9.44

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.18
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.16
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.96
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.43
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.32
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.24
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.00
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.97
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.88
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.66
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.10
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.08
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.76
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.75
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.58
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.38
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.99
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.72
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.84
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.64
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.60
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.71
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.44
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.37
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.51
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.40
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.91
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.63
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.58
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.53
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.57
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.54
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.28
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.87
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.42
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.39
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.94
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.90
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.72
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.61
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.42
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.34
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.86
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.74
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.69
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.46
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.46
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.62
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.82
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.43
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.20
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.50
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.15
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.96
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.96
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.77
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.45
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.12
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.02
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.94
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.86
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.58
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.52
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.46
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.04
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.97
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.87
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.03
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.84
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.20
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.77
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.89
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.23
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.13
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.08
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.08
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.59
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.31
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.04
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.24
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.73
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.91
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.73
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.24
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.11
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.06
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.78
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.15
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.82
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.77
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.72
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.71
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.89
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.54
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.49
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.05
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.48
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.44
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.78
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.43
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.51
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.75
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.28
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.69
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.95
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.60
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.