Gene detail

Detailed information of OS493_035092-T1 in Lophelia pertusa

Genomic Location: scaffold_309:18879...23629
NR annotation: KAJ7376349.1, hypothetical protein OS493_035092 [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
Q5R9E1	Hydroxymethylglutaryl-CoA lyase, mitochondrial OS=Pongo abelii OX=9601 GN=HMGCL PE=2 SV=1

Gene family

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

Pfam domain

No Pfam domain signature was detected for OS493_035092-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
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: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_035092-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_035092-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

80TPM > 0

7Conditions

12.1Max TPM

3.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	5	1.26	5.54
polyp at pH7 6	18	6	1.40	5.40
coral polyp · control treatment	16	16	5.05	12.14
coral polyp · oil and dispersant treatment	16	15	3.37	8.07
coral polyp · oil treatment	16	15	5.84	10.81
coral polyp · dispersant treatment	16	15	3.26	8.25
Polyp	10	8	4.37	7.26

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	-	5.54
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.38
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.06
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.80
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.92
SRR11359494	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
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.40
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.39
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.79
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.92
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.84
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.90
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	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
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
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.14
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.92
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.01
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.95
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.91
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.81
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.31
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.97
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.89
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.72
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.18
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.71
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.67
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.11
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.12
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.07
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.85
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.66
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.16
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.85
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.66
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.54
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.20
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.05
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.01
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.30
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.28
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.16
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.11
SRR16705977	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	10.81
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.46
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.26
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.05
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.64
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.63
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.56
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.56
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.46
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.99
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.61
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.49
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.91
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.71
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.22
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.25
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.17
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.09
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.12
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.96
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.71
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.27
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.88
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.49
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.30
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.07
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.86
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.84
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.63
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.26
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.76
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.39
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.05
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.06
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.79
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.70
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.74
SRR23025711	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.