Gene detail

Detailed information of OS493_015217-T1 in Lophelia pertusa

Genomic Location: scaffold_44:2405516...2410940
NR annotation: KAJ7385629.1, hypothetical protein OS493_015217 [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
P11966	Pyruvate dehydrogenase E1 component subunit beta, mitochondrial OS=Bos taurus OX=9913 GN=PDHB PE=1 SV=2
O44451	Pyruvate dehydrogenase E1 component subunit beta, mitochondrial OS=Caenorhabditis elegans OX=6239 GN=pdhb-1 PE=1 SV=2
Q9D051	Pyruvate dehydrogenase E1 component subunit beta, mitochondrial OS=Mus musculus OX=10090 GN=Pdhb PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004162 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02779 all species →	Transket_pyr	Transketolase, pyrimidine binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027110 all species →	Family	Pyruvate dehydrogenase E1 component subunit beta	Interproscan
IPR005475 all species →	Domain	Transketolase-like, pyrimidine-binding domain	Interproscan
IPR029061 all species →	Homologous_superfamily	Thiamin diphosphate-binding fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11624 all species →	DEHYDROGENASE RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004739 all species →	Molecular Function	pyruvate dehydrogenase (acetyl-transferring) activity	Interproscan
GO:0005967 all species →	Cellular Component	obsolete mitochondrial pyruvate dehydrogenase complex	Interproscan
GO:0006086 all species →	Biological Process	acetyl-CoA biosynthetic process from pyruvate	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
K00162	PDHB, pdhB; pyruvate dehydrogenase E1 component subunit beta	EC:1.2.4.1	Diabetic cardiomyopathy	ko05415	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_015217-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

43.9Max TPM

18.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	18.47	24.58
polyp at pH7 6	18	18	18.87	26.56
coral polyp · control treatment	16	16	23.12	43.94
coral polyp · oil and dispersant treatment	16	16	15.35	30.84
coral polyp · oil treatment	16	16	19.94	30.95
coral polyp · dispersant treatment	16	16	19.03	39.33
Polyp	10	10	15.20	22.06

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	-	24.58
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.66
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.27
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.19
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.89
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.46
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.13
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.82
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.80
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.51
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.77
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.73
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.02
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.02
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.02
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.89
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.62
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.56
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.43
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.41
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.91
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.41
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.97
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.84
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.26
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.16
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.26
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.20
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.99
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.99
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.86
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.53
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.10
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.69
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.13
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.94
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.71
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.62
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.53
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.45
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.74
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.29
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.40
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.93
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.86
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.82
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.76
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.89
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.47
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.59
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.86
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.84
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.57
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.61
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.62
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.48
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.50
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.94
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.96
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.95
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.01
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.73
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.23
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.87
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.71
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.47
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.06
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.95
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.67
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.70
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.33
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.71
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.69
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.52
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.20
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.88
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.51
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.23
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.46
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.52
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.44
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.33
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.23
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.89
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.64
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.43
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.17
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.65
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.46
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.34
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.15
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.09
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.03
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.04
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.38
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.80
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	22.06
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	21.26
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	20.16
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	18.53
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.26
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	12.88
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	12.81
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.46
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	12.31
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.24

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.