Gene detail

Detailed information of OS493_001650-T1 in Lophelia pertusa

Genomic Location: scaffold_3:7550981...7563584
NR annotation: KAJ7381502.1, D-2-hydroxyglutarate dehydrogenase, mitochondrial [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
A1L258	D-2-hydroxyglutarate dehydrogenase, mitochondrial OS=Danio rerio OX=7955 GN=d2hgdh PE=2 SV=1
P84850	D-2-hydroxyglutarate dehydrogenase, mitochondrial OS=Rattus norvegicus OX=10116 GN=D2hgdh PE=1 SV=1
O23240	D-2-hydroxyglutarate dehydrogenase, mitochondrial OS=Arabidopsis thaliana OX=3702 GN=D2HGDH PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004203 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02913 all species →	FAD-oxidase_C	FAD linked oxidases, C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016171 all species →	Homologous_superfamily	Vanillyl-alcohol oxidase, C-terminal subdomain 2	Interproscan
IPR051264 all species →	Family	FAD-binding Oxidoreductase/Transferase Type 4	Interproscan
IPR016164 all species →	Homologous_superfamily	FAD-linked oxidase-like, C-terminal	Interproscan
IPR004113 all species →	Domain	FAD-binding oxidoreductase/transferase, type 4, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43716 all species →	D-2-HYDROXYGLUTARATE DEHYDROGENASE, MITOCHONDRIAL	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	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_001650-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_001650-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

37.2Max TPM

15.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.35	23.20
polyp at pH7 6	18	18	18.23	28.48
coral polyp · control treatment	16	16	14.28	26.87
coral polyp · oil and dispersant treatment	16	16	11.28	36.91
coral polyp · oil treatment	16	16	14.39	31.43
coral polyp · dispersant treatment	16	16	11.98	23.71
Polyp	10	10	24.06	37.22

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.20
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.60
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.95
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.74
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.86
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.59
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.46
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.16
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.91
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.49
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.87
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.64
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.44
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.31
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.06
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.49
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.19
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.41
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.48
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.95
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.57
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.83
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.63
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.19
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.33
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.76
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.77
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.14
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.13
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.65
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.81
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.34
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.63
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.18
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.18
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.59
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.87
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.58
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.64
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.25
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.84
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.63
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.43
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.34
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.38
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.36
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.23
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.64
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.93
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.54
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.41
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.40
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.91
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.09
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.87
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.05
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.24
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.91
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.48
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.17
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.14
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.43
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.95
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.83
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.51
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.44
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.09
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.40
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.43
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.09
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.06
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.81
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.16
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.02
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.14
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.07
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.30
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.30
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.92
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.35
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.78
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.53
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.06
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.71
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.73
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.42
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.19
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.84
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.49
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.55
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.45
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.67
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.53
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.24
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.22
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.41
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.42
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.78
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	37.22
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	34.95
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	25.76
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	25.62
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	22.17
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	21.54
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	20.42
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	19.82
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	19.03
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	14.09

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.