Gene detail

Detailed information of OS493_015573-T1 in Lophelia pertusa

Genomic Location: scaffold_47:633598...636483
NR annotation: KAJ7360472.1, hypothetical protein OS493_015573 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000643 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12937 all species →	F-box-like	F-box-like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016135 all species →	Homologous_superfamily	Ubiquitin-conjugating enzyme/RWD-like	Interproscan
IPR001810 all species →	Domain	F-box domain	Interproscan
IPR036047 all species →	Homologous_superfamily	F-box-like domain superfamily	Interproscan
IPR052121 all species →	Family	F-box Protein Family Substrate Recognition Components	Interproscan
IPR000608 all species →	Domain	Ubiquitin-conjugating enzyme E2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46550 all species →	F-BOX ONLY PROTEIN 3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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_015573-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_015573-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

23.2Max TPM

8.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.38	15.88
polyp at pH7 6	18	17	6.84	11.08
coral polyp · control treatment	16	16	11.48	23.21
coral polyp · oil and dispersant treatment	16	16	10.20	16.22
coral polyp · oil treatment	16	16	9.78	16.27
coral polyp · dispersant treatment	16	16	8.08	14.19
Polyp	10	10	4.17	7.34

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.36
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.14
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.26
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.82
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.15
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.03
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.70
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.65
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.12
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.31
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.86
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.86
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.18
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.13
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.08
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.09
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.08
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.74
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.36
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.28
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.23
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.96
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.34
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.03
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.92
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.74
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.03
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.86
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.68
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.45
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.13
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.95
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.21
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.54
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.49
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.40
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.25
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.81
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.71
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.35
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.97
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.82
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.10
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.22
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.37
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.59
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.12
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.78
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.22
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.61
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.34
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.71
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.12
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.07
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.96
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.56
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.18
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.77
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.63
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.16
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.97
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.60
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.77
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.50
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.27
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.59
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.49
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.21
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.12
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.04
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.67
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.53
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.66
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.95
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.73
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.37
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.23
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.38
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.19
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.05
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.19
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.04
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.77
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.05
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.25
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.23
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.60
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.56
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.45
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.40
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.82
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.81
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.44
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.51
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.17
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.03
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.34
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.76
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.88
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.39
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.42
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.39
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.33
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.71
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.25
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.18

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.