Gene detail

Detailed information of OS493_020718-T1 in Lophelia pertusa

Genomic Location: scaffold_77:791613...798246
NR annotation: KAJ7358880.1, hypothetical protein OS493_020718 [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
P10173	Fumarate hydratase, mitochondrial OS=Sus scrofa OX=9823 GN=FH PE=1 SV=2
P14408	Fumarate hydratase, mitochondrial OS=Rattus norvegicus OX=10116 GN=Fh PE=1 SV=2
Q60HF9	Fumarate hydratase, mitochondrial OS=Macaca fascicularis OX=9541 GN=FH PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003360 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00206 all species →	Lyase_1	Lyase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000362 all species →	Family	Fumarate lyase family	Interproscan
IPR008948 all species →	Homologous_superfamily	L-Aspartase-like	Interproscan
IPR024083 all species →	Homologous_superfamily	Fumarase/histidase, N-terminal	Interproscan
IPR005677 all species →	Family	Fumarate hydratase, class II	Interproscan
IPR022761 all species →	Domain	Fumarate lyase, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11444 all species →	ASPARTATEAMMONIA/ARGININOSUCCINATE/ADENYLOSUCCINATE LYASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0004333 all species →	Molecular Function	fumarate hydratase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006099 all species →	Biological Process	tricarboxylic acid cycle	Interproscan
GO:0006106 all species →	Biological Process	fumarate metabolic process	Interproscan
GO:0006108 all species →	Biological Process	malate metabolic 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_020718-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_020718-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

108TPM > 0

7Conditions

82.4Max TPM

8.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.45	14.64
polyp at pH7 6	18	18	10.12	14.96
coral polyp · control treatment	16	16	12.54	82.45
coral polyp · oil and dispersant treatment	16	16	9.92	79.08
coral polyp · oil treatment	16	16	7.77	13.37
coral polyp · dispersant treatment	16	15	6.24	12.85
Polyp	10	9	4.82	10.79

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.64
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.05
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.85
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.57
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.41
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.28
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.71
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.61
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.45
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.29
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.22
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.07
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.82
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.68
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.62
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.49
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.62
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.73
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.96
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.47
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.37
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.84
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.05
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.90
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.85
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.56
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.28
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.21
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.05
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.72
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.68
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.39
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.61
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.17
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	82.45
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.79
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.88
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.22
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.51
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.37
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.26
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.56
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.28
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.37
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.26
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.97
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.65
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.36
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.17
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.54
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	79.08
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.94
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.57
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.68
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.00
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.28
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.85
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.59
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.52
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.77
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.08
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.62
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.31
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.94
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.53
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.37
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.33
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.31
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.17
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.04
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.99
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.63
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.53
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.42
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.04
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.47
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.58
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.34
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.09
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.58
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.41
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.85
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.46
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.45
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.84
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.35
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.88
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.47
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.42
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.16
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.62
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.11
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.91
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.20
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.97
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.15
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.79
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.16
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.43
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.09
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.72
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.31
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.43
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.24
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.98
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.