Gene detail

Detailed information of OS493_010948-T1 in Lophelia pertusa

Genomic Location: scaffold_27:2083961...2087112
NR annotation: KAJ7380233.1, hypothetical protein OS493_010948 [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
Q05B87	Frataxin, mitochondrial OS=Bos taurus OX=9913 GN=FXN PE=2 SV=1
O35943	Frataxin, mitochondrial OS=Mus musculus OX=10090 GN=Fxn PE=1 SV=1
Q16595	Frataxin, mitochondrial OS=Homo sapiens OX=9606 GN=FXN PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007682 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01491 all species →	Frataxin_Cyay	Frataxin-like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036524 all species →	Homologous_superfamily	Frataxin/CyaY superfamily	Interproscan
IPR020895 all species →	Conserved_site	Frataxin conserved site	Interproscan
IPR002908 all species →	Family	Frataxin/CyaY	Interproscan
IPR017789 all species →	Family	Frataxin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16821 all species →	FRATAXIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008199 all species →	Molecular Function	ferric iron binding	Interproscan
GO:0016226 all species →	Biological Process	iron-sulfur cluster assembly	Interproscan
GO:0004322 all species →	Molecular Function	ferroxidase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006879 all species →	Biological Process	intracellular iron ion homeostasis	Interproscan
GO:0008198 all species →	Molecular Function	ferrous iron binding	Interproscan
GO:0018283 all species →	Biological Process	iron incorporation into metallo-sulfur cluster	Interproscan
GO:0034986 all species →	Molecular Function	iron chaperone activity	Interproscan
GO:0051537 all species →	Molecular Function	2 iron, 2 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K19054	FXN; frataxin	EC:1.16.3.1	Mitochondrial biogenesis	ko03029	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_010948-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

109TPM > 0

7Conditions

25.5Max TPM

8.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.37	18.16
polyp at pH7 6	18	18	11.07	22.29
coral polyp · control treatment	16	16	9.93	19.53
coral polyp · oil and dispersant treatment	16	16	5.83	12.37
coral polyp · oil treatment	16	16	9.32	21.75
coral polyp · dispersant treatment	16	16	4.52	12.43
Polyp	10	9	9.74	25.54

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.16
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.13
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.72
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.07
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.75
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.56
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.75
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.23
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.76
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.74
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.47
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.41
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.79
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.65
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.13
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.01
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.92
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.29
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.56
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.49
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.22
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.06
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.59
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.58
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.37
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.14
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.53
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.70
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.69
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.68
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.47
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.29
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.70
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.42
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.40
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.53
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.76
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.41
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.46
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.35
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.86
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.83
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.80
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.79
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.64
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.23
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.05
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.96
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.66
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.87
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.68
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.37
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.24
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.85
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.47
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.01
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.65
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.23
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.01
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.94
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.03
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.13
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.98
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.70
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.89
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.81
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.75
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.50
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.60
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.96
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.11
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.88
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.83
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.81
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.88
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.67
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.32
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.75
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.80
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.58
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.48
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.13
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.43
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.13
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.74
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.79
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.50
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.63
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.44
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.78
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.15
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.95
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.74
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.14
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.68
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.99
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.45
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	25.54
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.92
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.86
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	12.90
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	12.03
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.11
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.86
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.53
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.66
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.