Gene detail

Detailed information of OS493_033889-T1 in Lophelia pertusa

Genomic Location: scaffold_276:272334...283117
NR annotation: KAJ7321781.1, hypothetical protein OS493_033889 [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
P21953	2-oxoisovalerate dehydrogenase subunit beta, mitochondrial OS=Homo sapiens OX=9606 GN=BCKDHB PE=1 SV=2
Q6P3A8	2-oxoisovalerate dehydrogenase subunit beta, mitochondrial OS=Mus musculus OX=10090 GN=Bckdhb PE=1 SV=2
P35738	2-oxoisovalerate dehydrogenase subunit beta, mitochondrial OS=Rattus norvegicus OX=10116 GN=Bckdhb PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004764 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02780 all species →	Transketolase_C	Transketolase, C-terminal domain	Domain	Interproscan
PF02779 all species →	Transket_pyr	Transketolase, pyrimidine binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR033248 all species →	Domain	Transketolase, C-terminal domain	Interproscan
IPR005475 all species →	Domain	Transketolase-like, pyrimidine-binding domain	Interproscan
IPR009014 all species →	Homologous_superfamily	Transketolase C-terminal/Pyruvate-ferredoxin oxidoreductase domain II	Interproscan
IPR029061 all species →	Homologous_superfamily	Thiamin diphosphate-binding fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR42980 all species →	2-OXOISOVALERATE DEHYDROGENASE SUBUNIT BETA-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0005947 all species →	Cellular Component	obsolete mitochondrial alpha-ketoglutarate dehydrogenase complex	Interproscan
GO:0007584 all species →	Biological Process	response to nutrient	Interproscan
GO:0009083 all species →	Biological Process	branched-chain amino acid 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K00167	BCKDHB, bkdA2; 2-oxoisovalerate dehydrogenase E1 component subunit beta	EC:1.2.4.4	Lipoic acid metabolism	ko00785	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_033889-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

18.6Max TPM

8.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.59	13.07
polyp at pH7 6	18	18	8.80	13.37
coral polyp · control treatment	16	16	9.24	16.99
coral polyp · oil and dispersant treatment	16	16	7.55	18.56
coral polyp · oil treatment	16	16	7.89	13.39
coral polyp · dispersant treatment	16	16	5.92	8.81
Polyp	10	9	8.09	14.03

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.07
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.45
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.08
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.68
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.17
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.04
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.82
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.62
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.94
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.76
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.66
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.52
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.50
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.25
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.92
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.44
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.12
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.63
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.37
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.46
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.01
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.59
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.76
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.16
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.15
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.06
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.37
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.14
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.10
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.93
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.76
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.04
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.06
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.99
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.14
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.33
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.47
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.94
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.30
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.85
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.76
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.33
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.01
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.75
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.25
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.26
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.25
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.66
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.56
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.23
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.51
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.23
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.16
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.72
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.62
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.13
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.45
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.55
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.23
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.52
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.44
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.94
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.39
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.24
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.97
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.84
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.85
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.10
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.07
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.61
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.57
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.44
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.39
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.06
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.04
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.83
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.15
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.72
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.81
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.54
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.13
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.06
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.79
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.51
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.58
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.28
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.04
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.21
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.20
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.98
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.34
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.37
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.01
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	14.03
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	11.24
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.12
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.99
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.02
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.67
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.73
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.38
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.69
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.