Gene detail

Detailed information of OS493_034676-T1 in Lophelia pertusa

Genomic Location: scaffold_296:452088...458581
NR annotation: KAJ7382513.1, F-box only protein 9 [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
Q6P3K3	F-box only protein 9 OS=Danio rerio OX=7955 GN=fbxo9 PE=2 SV=1
Q5U2X1	F-box only protein 9 OS=Rattus norvegicus OX=10116 GN=Fbxo9 PE=1 SV=1
F6Y9J3	F-box only protein 9 OS=Xenopus tropicalis OX=8364 GN=fbxo9 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005531 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF19270 all species →	FBO_C	F-box only protein C-terminal region	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR045118 all species →	Family	F-box only protein FBXO9/FBXO48	Interproscan
IPR045464 all species →	Domain	F-box protein Hrt3/FBXO9, C-terminal	Interproscan
IPR036047 all species →	Homologous_superfamily	F-box-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12874 all species →	F-BOX ONLY PROTEIN 48-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0019005 all species →	Cellular Component	SCF ubiquitin ligase complex	Interproscan
GO:0031146 all species →	Biological Process	SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	Interproscan
GO:0005515 all species →	Molecular Function	protein 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_034676-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_034676-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

70.2Max TPM

36.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	41.10	61.24
polyp at pH7 6	18	18	37.56	57.67
coral polyp · control treatment	16	16	45.99	62.12
coral polyp · oil and dispersant treatment	16	16	37.21	54.18
coral polyp · oil treatment	16	16	41.69	70.17
coral polyp · dispersant treatment	16	16	19.84	36.32
Polyp	10	10	24.45	40.89

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.24
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.03
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.87
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.76
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.21
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.44
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.54
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.68
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.65
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.96
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.05
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.88
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.78
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.43
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.75
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.64
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.64
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.31
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.67
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.31
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.54
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.15
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.47
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.93
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.56
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.55
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.50
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.32
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.99
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.84
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.36
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.15
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.18
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.90
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.40
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.21
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.12
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.73
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.25
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.31
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.46
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.91
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.21
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.90
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.87
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.42
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.50
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.18
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.35
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.31
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.30
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.18
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.84
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.56
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.85
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.31
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.47
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.38
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.59
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.49
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.42
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.37
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.18
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.94
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.57
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.63
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.62
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.17
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.46
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.13
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.12
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.58
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.85
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.11
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.06
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.71
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.38
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.88
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.61
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.25
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.09
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.47
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.18
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.32
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.50
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.98
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.01
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.99
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.57
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.07
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.86
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.08
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.02
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.37
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.41
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.77
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.40
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.37
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.73
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	40.89
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	38.21
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	37.95
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	26.53
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	26.51
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	24.99
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	14.15
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	13.56
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	11.53
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	10.15

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.