Gene detail

Detailed information of OS493_040349-T1 in Lophelia pertusa

Genomic Location: scaffold_2091:326...487
NR annotation: KAJ7375568.1, Aconitate hydratase mitochondrial, partial [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
Q90875	Cytoplasmic aconitate hydratase OS=Gallus gallus OX=9031 GN=ACO1 PE=2 SV=1
P28271	Cytoplasmic aconitate hydratase OS=Mus musculus OX=10090 GN=Aco1 PE=1 SV=3
Q63270	Cytoplasmic aconitate hydratase OS=Rattus norvegicus OX=10116 GN=Aco1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0086072 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00330 all species →	Aconitase	Aconitase family (aconitate hydratase)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006249 all species →	Family	Aconitase/Iron-responsive element-binding protein 2	Interproscan
IPR001030 all species →	Domain	Aconitase/3-isopropylmalate dehydratase large subunit, alpha/beta/alpha domain	Interproscan
IPR036008 all species →	Homologous_superfamily	Aconitase, iron-sulfur domain	Interproscan
IPR015931 all species →	Homologous_superfamily	Aconitase/3-isopropylmalate dehydratase large subunit, alpha/beta/alpha, subdomain 1/3	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11670 all species →	ACONITASE/IRON-RESPONSIVE ELEMENT FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003994 all species →	Molecular Function	aconitate hydratase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006099 all species →	Biological Process	tricarboxylic acid cycle	Interproscan
GO:0006101 all species →	Biological Process	citrate metabolic process	Interproscan
GO:0030350 all species →	Molecular Function	iron-responsive element binding	Interproscan
GO:0051539 all species →	Molecular Function	4 iron, 4 sulfur cluster 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

No KEGG orthology assignment for OS493_040349-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_040349-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

70TPM > 0

7Conditions

27.1Max TPM

5.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.38	27.11
polyp at pH7 6	18	18	15.43	25.06
coral polyp · control treatment	16	7	0.08	0.42
coral polyp · oil and dispersant treatment	16	7	0.06	0.23
coral polyp · oil treatment	16	3	0.03	0.30
coral polyp · dispersant treatment	16	7	0.22	1.95
Polyp	10	10	2.03	5.66

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	-	27.11
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.34
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.96
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.54
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.12
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.03
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.83
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.20
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.58
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.57
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.22
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.91
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.89
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.58
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.52
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.97
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.69
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.73
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.06
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.04
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.01
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.57
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.65
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.80
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.28
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.52
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.67
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.53
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.48
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.25
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.84
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.09
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.89
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.69
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.29
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.03
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.42
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.27
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.21
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.17
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.16
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.06
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.06
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705970	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
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.23
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.20
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.17
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.17
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.06
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.05
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.05
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705976	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
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705993	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
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.30
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.10
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.08
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705961	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
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	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
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705998	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
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.95
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.70
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.27
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.21
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.16
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.11
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.05
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
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705969	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
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.66
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.85
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.52
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.27
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.34
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.30
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.20
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.96
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.63
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.60

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.