Gene detail

Detailed information of OS493_004877-T1 in Lophelia pertusa

Genomic Location: scaffold_10:550560...564044
NR annotation: KAJ7374539.1, hypothetical protein OS493_004877 [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
F1QXM5	Probable D-lactate dehydrogenase, mitochondrial OS=Danio rerio OX=7955 GN=ldhd PE=2 SV=1
Q7TNG8	Probable D-lactate dehydrogenase, mitochondrial OS=Mus musculus OX=10090 GN=Ldhd PE=1 SV=1
Q86WU2	Probable D-lactate dehydrogenase, mitochondrial OS=Homo sapiens OX=9606 GN=LDHD PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004714 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01565 all species →	FAD_binding_4	FAD binding domain	Domain	Interproscan
PF02913 all species →	FAD-oxidase_C	FAD linked oxidases, C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016169 all species →	Homologous_superfamily	FAD-binding, type PCMH, subdomain 2	Interproscan
IPR016166 all species →	Domain	FAD-binding domain, PCMH-type	Interproscan
IPR006094 all species →	Domain	FAD linked oxidase, N-terminal	Interproscan
IPR016171 all species →	Homologous_superfamily	Vanillyl-alcohol oxidase, C-terminal subdomain 2	Interproscan
IPR036318 all species →	Homologous_superfamily	FAD-binding, type PCMH-like superfamily	Interproscan
IPR004113 all species →	Domain	FAD-binding oxidoreductase/transferase, type 4, C-terminal	Interproscan
IPR016164 all species →	Homologous_superfamily	FAD-linked oxidase-like, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11748 all species →	D-LACTATE DEHYDROGENASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0071949 all species →	Molecular Function	FAD binding	Interproscan
GO:0004458 all species →	Molecular Function	D-lactate dehydrogenase (cytochrome) activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0008720 all species →	Molecular Function	D-lactate dehydrogenase activity	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	Interproscan
GO:1903457 all species →	Biological Process	lactate catabolic process	Interproscan
GO:0003824 all species →	Molecular Function	catalytic 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
K00102	LDHD, dld; D-lactate dehydrogenase (cytochrome)	EC:1.1.2.4	Pyruvate metabolism	ko00620	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_004877-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

36.0Max TPM

12.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	16.72	29.76
polyp at pH7 6	18	18	14.91	20.82
coral polyp · control treatment	16	16	13.37	31.50
coral polyp · oil and dispersant treatment	16	16	9.17	23.32
coral polyp · oil treatment	16	16	15.21	35.99
coral polyp · dispersant treatment	16	16	9.79	20.95
Polyp	10	9	7.69	14.32

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.76
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.89
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.81
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.60
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.56
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.48
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.02
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.91
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.52
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.25
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.49
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.84
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.27
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.98
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.43
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.63
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.21
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.30
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.82
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.73
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.69
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.67
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.03
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.86
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.02
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.87
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.79
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.75
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.56
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.62
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.40
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.54
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.08
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.11
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.79
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.50
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.07
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.72
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.61
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.96
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.12
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.43
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.59
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.84
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.65
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.89
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.47
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.52
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.90
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.32
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.49
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.38
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.76
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.85
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.92
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.71
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.27
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.66
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.69
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.13
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.98
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.48
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.17
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.99
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.29
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.53
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.86
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.76
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.02
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.70
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.79
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.08
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.60
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.81
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.82
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.61
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.33
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.69
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.51
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.95
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.53
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.09
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.54
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.98
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.55
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.39
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.91
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.80
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.08
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.32
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.13
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.75
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.73
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.32
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	14.13
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.10
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	11.49
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.65
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.64
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.99
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.51
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.05
SRR7746667	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.