Gene detail

Detailed information of OS493_028914-T1 in Lophelia pertusa

Genomic Location: scaffold_171:392428...393507
NR annotation: KAJ7377472.1, hypothetical protein OS493_028914 [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)	OG0012384 (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
IPR001810 all species →	Domain	F-box domain	Interproscan
IPR032675 all species →	Homologous_superfamily	Leucine-rich repeat domain superfamily	Interproscan
IPR036047 all species →	Homologous_superfamily	F-box-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR38926 all species →	F-BOX DOMAIN CONTAINING PROTEIN, EXPRESSED	Interproscan

Gene Ontology

GO term	Category	Description	Source
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_028914-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_028914-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

14.8Max TPM

3.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.70	4.11
polyp at pH7 6	18	18	2.87	7.06
coral polyp · control treatment	16	16	4.19	14.81
coral polyp · oil and dispersant treatment	16	16	3.24	13.11
coral polyp · oil treatment	16	16	3.64	6.19
coral polyp · dispersant treatment	16	16	1.67	4.50
Polyp	10	10	3.66	6.75

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.11
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.51
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.49
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.43
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.00
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.99
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.64
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.61
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.40
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.24
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.01
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.97
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.81
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.22
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.96
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.06
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.01
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.65
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.95
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.36
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.28
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.23
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.23
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.21
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.82
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.54
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.27
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.99
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.61
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.13
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.01
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.94
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.46
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.81
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.46
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.30
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.32
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.84
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.74
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.72
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.63
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.61
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.33
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.65
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.35
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.04
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.92
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.11
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.03
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.70
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.45
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.34
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.30
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.22
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.83
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.79
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.70
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.40
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.28
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.63
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.21
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.14
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.75
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.19
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.82
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.32
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.53
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.02
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.76
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.51
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.48
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.16
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.13
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.12
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.72
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.71
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.08
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.50
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.81
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.41
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.29
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.91
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.85
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.81
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.67
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.28
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.11
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.99
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.89
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.54
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.20
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.75
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.27
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.27
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.83
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.54
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.52
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.04
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.75
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.31
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.35

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.