Gene detail

Detailed information of OS493_039962-T1 in Lophelia pertusa

Genomic Location: scaffold_1597:270...1369
NR annotation: KAJ7388075.1, hypothetical protein OS493_039962 [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
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
F1QXM5	Probable D-lactate dehydrogenase, mitochondrial OS=Danio rerio OX=7955 GN=ldhd PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004714 (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
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
IPR016171 all species →	Homologous_superfamily	Vanillyl-alcohol oxidase, C-terminal subdomain 2	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide 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:1903457 all species →	Biological Process	lactate catabolic process	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_039962-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_039962-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

99TPM > 0

7Conditions

15.5Max TPM

4.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	6.12	14.82
polyp at pH7 6	18	14	6.06	10.99
coral polyp · control treatment	16	16	5.73	13.62
coral polyp · oil and dispersant treatment	16	16	3.31	12.41
coral polyp · oil treatment	16	16	5.52	15.53
coral polyp · dispersant treatment	16	16	2.31	5.07
Polyp	10	6	2.45	7.36

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	-	14.82
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.26
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.02
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.92
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.04
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.89
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.58
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.30
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.07
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.13
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.32
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.26
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.09
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.64
SRR11359494	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
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.99
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.59
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.40
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.38
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.18
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.05
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.94
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.71
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.72
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.65
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.08
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.72
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.56
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.08
SRR11359512	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
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.62
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.75
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.44
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.72
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.37
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.05
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.38
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.39
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.63
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.05
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.94
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.81
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.72
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.17
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.07
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.60
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.41
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.36
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.52
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.13
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.57
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.21
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.06
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.73
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.25
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.10
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.94
SRR16705982	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	1.87
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.73
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.65
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.63
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.53
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.37
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.44
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.73
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.39
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.01
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.65
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.51
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.34
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.67
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.43
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.26
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.97
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.98
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.61
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.42
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.07
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.87
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.06
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.23
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.15
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.96
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.87
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.50
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.39
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.38
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.97
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.89
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.63
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.25
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.36
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.34
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.08
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.64
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.09
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.04
SRR23025710	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.