Gene detail

Detailed information of OS493_028854-T1 in Lophelia pertusa

Genomic Location: scaffold_169:825524...828451
NR annotation: KAJ7389885.1, hypothetical protein OS493_028854 [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
Q17GM7	Probable citrate synthase 1, mitochondrial OS=Aedes aegypti OX=7159 GN=AAEL002956 PE=3 SV=1
Q16P20	Probable citrate synthase 2, mitochondrial OS=Aedes aegypti OX=7159 GN=AAEL011789 PE=3 SV=1
Q28DK1	Citrate synthase, mitochondrial OS=Xenopus tropicalis OX=8364 GN=cs PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004333 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00285 all species →	Citrate_synt	Citrate synthase, C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036969 all species →	Homologous_superfamily	Citrate synthase superfamily	Interproscan
IPR016143 all species →	Homologous_superfamily	Citrate synthase-like, small alpha subdomain	Interproscan
IPR002020 all species →	Family	Citrate synthase	Interproscan
IPR019810 all species →	Active_site	Citrate synthase active site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11739 all species →	CITRATE SYNTHASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046912 all species →	Molecular Function	acyltransferase activity, acyl groups converted into alkyl on transfer	Interproscan
GO:0004108 all species →	Molecular Function	citrate (Si)-synthase activity	Interproscan
GO:0005759 all species →	Cellular Component	mitochondrial matrix	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0006099 all species →	Biological Process	tricarboxylic acid cycle	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_028854-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_028854-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

110TPM > 0

7Conditions

201.8Max TPM

101.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	94.32	115.08
polyp at pH7 6	18	18	102.46	122.63
coral polyp · control treatment	16	16	122.36	178.95
coral polyp · oil and dispersant treatment	16	16	95.68	154.75
coral polyp · oil treatment	16	16	110.75	201.83
coral polyp · dispersant treatment	16	16	71.04	121.28
Polyp	10	10	120.74	160.06

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	115.08
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	109.37
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	108.51
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	105.54
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	104.66
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	101.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	96.77
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	95.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	94.46
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	94.23
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	93.54
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	90.34
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	89.40
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	87.20
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	83.90
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	82.91
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	74.91
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.51
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	122.63
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	121.49
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	113.68
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	109.34
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	109.10
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	107.78
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	107.30
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	106.13
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	105.19
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	104.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	102.12
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	99.97
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	97.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	94.78
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	89.91
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	88.46
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	84.16
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	80.36
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	178.95
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	161.53
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	158.54
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	154.59
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	145.95
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	145.15
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	133.91
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	127.01
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	117.48
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	112.85
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	103.81
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	99.98
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	93.64
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.76
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.61
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.93
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	154.75
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	141.45
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	124.26
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	116.88
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	114.14
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	98.21
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	92.59
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	90.46
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.92
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	85.78
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.70
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	81.11
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.72
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.15
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.56
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.25
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	201.83
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	146.01
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	142.18
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	125.17
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	119.69
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	115.50
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	113.94
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	105.69
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	102.69
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	102.37
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	93.97
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	93.06
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.09
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.75
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.46
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	71.56
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	121.28
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	117.83
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	112.23
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	110.20
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	88.12
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	78.64
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.40
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.25
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.28
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.47
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.16
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.79
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.83
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.27
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.15
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.66
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	160.06
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	145.99
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	129.96
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	124.71
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	116.78
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	114.84
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	111.60
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	111.27
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	108.97
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	83.24

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.