Gene detail

Detailed information of OS493_035093-T1 in Lophelia pertusa

Genomic Location: scaffold_309:24302...27161
NR annotation: KAJ7376350.1, hypothetical protein OS493_035093 [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
P38060	Hydroxymethylglutaryl-CoA lyase, mitochondrial OS=Mus musculus OX=10090 GN=Hmgcl PE=1 SV=2
P97519	Hydroxymethylglutaryl-CoA lyase, mitochondrial OS=Rattus norvegicus OX=10116 GN=Hmgcl PE=2 SV=1
Q29448	Hydroxymethylglutaryl-CoA lyase, mitochondrial OS=Bos taurus OX=9913 GN=HMGCL PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003337 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00682 all species →	HMGL-like	HMGL-like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000891 all species →	Domain	Pyruvate carboxyltransferase	Interproscan
IPR013785 all species →	Homologous_superfamily	Aldolase-type TIM barrel	Interproscan
IPR043594 all species →	Family	HMG-CoA lyase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR42738 all species →	HYDROXYMETHYLGLUTARYL-COA LYASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0004419 all species →	Molecular Function	hydroxymethylglutaryl-CoA lyase activity	Interproscan
GO:0006552 all species →	Biological Process	L-leucine catabolic process	Interproscan
GO:0016833 all species →	Molecular Function	oxo-acid-lyase activity	Interproscan
GO:0046951 all species →	Biological Process	ketone body biosynthetic 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_035093-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_035093-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

53TPM > 0

7Conditions

10.1Max TPM

1.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	6	1.10	5.33
polyp at pH7 6	18	4	0.78	6.21
coral polyp · control treatment	16	12	2.77	10.15
coral polyp · oil and dispersant treatment	16	10	1.89	4.77
coral polyp · oil treatment	16	9	2.63	7.48
coral polyp · dispersant treatment	16	7	2.01	7.79
Polyp	10	5	1.21	3.84

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.33
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.85
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.79
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.45
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.14
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359510	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
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.21
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.54
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.45
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.87
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	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
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.15
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.90
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.82
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.05
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.82
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.67
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.67
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.15
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.94
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.93
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.44
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.80
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.77
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.58
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.49
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.18
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.77
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.27
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.13
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.92
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.96
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.48
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.99
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.88
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.73
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.46
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.82
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.23
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.99
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.50
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.79
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.64
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.35
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.27
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.19
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.51
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.47
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.84
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.98
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.27
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.50
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.50
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025713	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.