Gene detail

Detailed information of OS493_039979-T1 in Lophelia pertusa

Genomic Location: scaffold_1614:3643...9181
NR annotation: KAJ7310880.1, 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
Q5ZKI2	2-(3-amino-3-carboxypropyl)histidine synthase subunit 2 OS=Gallus gallus OX=9031 GN=DPH2 PE=2 SV=1
Q6DE00	2-(3-amino-3-carboxypropyl)histidine synthase subunit 2 OS=Xenopus laevis OX=8355 GN=dph2 PE=2 SV=1
A7SKJ3	2-(3-amino-3-carboxypropyl)histidine synthase subunit 2 OS=Nematostella vectensis OX=45351 GN=dph2 PE=3 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

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

No KEGG orthology assignment for OS493_039979-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_039979-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

81TPM > 0

7Conditions

9.9Max TPM

2.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	7	0.50	1.75
polyp at pH7 6	18	10	1.00	2.89
coral polyp · control treatment	16	15	3.58	9.92
coral polyp · oil and dispersant treatment	16	14	2.51	4.43
coral polyp · oil treatment	16	15	2.66	5.40
coral polyp · dispersant treatment	16	14	2.49	4.60
Polyp	10	6	0.93	2.61

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.75
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.45
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.41
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.26
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.23
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.05
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.79
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.89
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.34
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.07
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.06
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.03
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.96
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.59
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.39
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.17
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.52
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.92
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.81
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.66
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.50
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.82
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.58
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.27
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.06
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.67
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.25
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.22
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.20
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.09
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.37
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.80
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.43
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.39
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.98
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.76
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.45
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.45
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.97
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.57
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.21
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.17
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.87
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.82
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.67
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.35
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.40
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.02
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.04
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.72
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.69
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.44
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.25
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.74
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.47
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.96
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.95
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.84
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.41
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.28
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.35
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.60
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.56
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.33
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.23
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.97
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.90
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.68
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.50
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.13
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.98
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.90
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.25
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.61
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.94
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.57
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.16
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.05
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.91
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
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.