Gene detail

Detailed information of OS493_007176-T1 in Lophelia pertusa

Genomic Location: scaffold_15:2700909...2706589
NR annotation: KAJ7380794.1, hypothetical protein OS493_007176 [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
Q5RBD5	Isovaleryl-CoA dehydrogenase, mitochondrial OS=Pongo abelii OX=9601 GN=IVD PE=2 SV=1
Q9JHI5	Isovaleryl-CoA dehydrogenase, mitochondrial OS=Mus musculus OX=10090 GN=Ivd PE=1 SV=1
P26440	Isovaleryl-CoA dehydrogenase, mitochondrial OS=Homo sapiens OX=9606 GN=IVD PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004639 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02770 all species →	Acyl-CoA_dh_M	Acyl-CoA dehydrogenase, middle domain	Domain	Interproscan
PF02771 all species →	Acyl-CoA_dh_N	Acyl-CoA dehydrogenase, N-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR046373 all species →	Homologous_superfamily	Acyl-CoA oxidase/dehydrogenase, middle domain superfamily	Interproscan
IPR006091 all species →	Domain	Acyl-CoA oxidase/dehydrogenase, middle domain	Interproscan
IPR006089 all species →	Conserved_site	Acyl-CoA dehydrogenase, conserved site	Interproscan
IPR009100 all species →	Homologous_superfamily	Acyl-CoA dehydrogenase/oxidase, N-terminal and middle domain superfamily	Interproscan
IPR037069 all species →	Homologous_superfamily	Acyl-CoA dehydrogenase/oxidase, N-terminal domain superfamily	Interproscan
IPR013786 all species →	Domain	Acyl-CoA dehydrogenase/oxidase, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43884 all species →	ACYL-COA DEHYDROGENASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016627 all species →	Molecular Function	oxidoreductase activity, acting on the CH-CH group of donors	Interproscan
GO:0003995 all species →	Molecular Function	acyl-CoA dehydrogenase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006552 all species →	Biological Process	L-leucine catabolic process	Interproscan
GO:0008470 all species →	Molecular Function	3-methylbutanoyl-CoA dehydrogenase 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K00253	IVD, ivd; isovaleryl-CoA dehydrogenase	EC:1.3.8.4	Valine, leucine and isoleucine degradation	ko00280	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_007176-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

24.5Max TPM

11.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.80	17.74
polyp at pH7 6	18	18	8.92	15.40
coral polyp · control treatment	16	16	13.97	24.55
coral polyp · oil and dispersant treatment	16	16	14.92	21.27
coral polyp · oil treatment	16	16	12.28	20.09
coral polyp · dispersant treatment	16	16	13.32	22.71
Polyp	10	9	6.77	16.45

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.74
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.01
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.64
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.21
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.19
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.57
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.38
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.18
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.07
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.07
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.62
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.60
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.52
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.28
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.66
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.35
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.75
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.59
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.40
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.38
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.80
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.95
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.56
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.71
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.30
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.80
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.06
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.16
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.19
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.90
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.56
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.56
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.83
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.56
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.21
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.58
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.55
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.10
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.33
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.59
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.04
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.70
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.91
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.70
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.88
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.67
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.60
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.02
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.89
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.92
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.58
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.27
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.27
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.99
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.58
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.26
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.80
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.37
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.59
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.22
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.08
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.38
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.81
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.93
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.48
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.09
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.96
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.11
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.82
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.76
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.97
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.02
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.00
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.80
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.36
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.77
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.42
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.87
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.94
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.30
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.22
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.71
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.95
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.36
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.58
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.46
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.61
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.31
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.89
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.75
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.64
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.35
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.74
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.27
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.21
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.88
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.45
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.45
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.55
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.93
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.66
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.78
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.20
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.13
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.72
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.