Gene detail

Detailed information of OS493_011793-T1 in Lophelia pertusa

Genomic Location: scaffold_30:1683094...1696006
NR annotation: KAJ7336579.1, Fibroblast growth factor 18 [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
Q0VCA0	Fibroblast growth factor 18 OS=Bos taurus OX=9913 GN=FGF18 PE=2 SV=1
O89101	Fibroblast growth factor 18 OS=Mus musculus OX=10090 GN=Fgf18 PE=2 SV=1
O88182	Fibroblast growth factor 18 OS=Rattus norvegicus OX=10116 GN=Fgf18 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001355 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00167 all species →	FGF	Fibroblast growth factor	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002209 all species →	Family	Fibroblast growth factor family	Interproscan
IPR008996 all species →	Homologous_superfamily	Cytokine IL1/FGF	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11486 all species →	FIBROBLAST GROWTH FACTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008083 all species →	Molecular Function	growth factor activity	Interproscan
GO:0001934 all species →	Biological Process	positive regulation of protein phosphorylation	Interproscan
GO:0005104 all species →	Molecular Function	fibroblast growth factor receptor binding	Interproscan
GO:0005615 all species →	Cellular Component	extracellular space	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0008284 all species →	Biological Process	positive regulation of cell population proliferation	Interproscan
GO:0008543 all species →	Biological Process	fibroblast growth factor receptor signaling pathway	Interproscan
GO:0009887 all species →	Biological Process	animal organ morphogenesis	Interproscan
GO:0010628 all species →	Biological Process	positive regulation of gene expression	Interproscan
GO:0030154 all species →	Biological Process	cell differentiation	Interproscan
GO:0030334 all species →	Biological Process	regulation of cell migration	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
K04358	FGF; fibroblast growth factor	-	Glycosaminoglycan binding proteins	ko00536	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_011793-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

99TPM > 0

7Conditions

16.4Max TPM

2.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	3.10	5.98
polyp at pH7 6	18	15	3.28	8.58
coral polyp · control treatment	16	16	3.85	16.42
coral polyp · oil and dispersant treatment	16	15	2.71	6.56
coral polyp · oil treatment	16	15	2.59	5.34
coral polyp · dispersant treatment	16	15	2.98	7.05
Polyp	10	6	0.27	0.71

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.98
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.68
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.54
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.92
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.27
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.86
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.84
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.81
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.73
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.67
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.59
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.50
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.50
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.30
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.27
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.83
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.51
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.58
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.53
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.32
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.01
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.83
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.64
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.41
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.34
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.34
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.03
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.69
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.02
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.99
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.36
SRR11359500	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
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.42
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.64
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.52
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.71
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.49
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.08
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.24
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.01
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.31
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.22
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.02
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.94
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.61
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.11
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.96
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.37
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.56
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.31
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.92
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.43
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.35
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.33
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.76
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.34
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.85
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.57
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.52
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.40
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.35
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.86
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.34
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.06
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.96
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.95
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.93
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.48
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.09
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.32
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.09
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.78
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.50
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.30
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.85
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.69
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.05
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.09
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.05
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.39
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.47
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.58
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.49
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.15
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.81
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.75
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.70
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.30
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.01
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.68
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.10
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.71
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.64
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.49
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.38
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.37
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	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.