Gene detail

Detailed information of OS493_027060-T1 in Lophelia pertusa

Genomic Location: scaffold_144:321112...325207
NR annotation: KAJ7327370.1, hypothetical protein OS493_027060 [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)	OG0003054 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00020 all species →	TNFR_c6	TNFR/NGFR cysteine-rich region	Domain	Interproscan
PF17217 all species →	UPA	UPA domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001368 all species →	Domain	TNFR/NGFR cysteine-rich region	Interproscan
IPR033772 all species →	Domain	UPA domain	Interproscan
IPR052302 all species →	Family	Neurotrophin receptor-related death domain-containing protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46605 all species →	TUMOR NECROSIS FACTOR RECEPTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005035 all species →	Molecular Function	death receptor activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007266 all species →	Biological Process	Rho protein signal transduction	Interproscan
GO:0009986 all species →	Cellular Component	cell surface	Interproscan
GO:0015026 all species →	Molecular Function	coreceptor activity	Interproscan
GO:0048406 all species →	Molecular Function	nerve growth factor 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_027060-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_027060-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

96TPM > 0

7Conditions

62.0Max TPM

11.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.23	21.87
polyp at pH7 6	18	18	9.21	19.17
coral polyp · control treatment	16	12	15.24	62.03
coral polyp · oil and dispersant treatment	16	13	8.04	24.94
coral polyp · oil treatment	16	12	9.46	27.05
coral polyp · dispersant treatment	16	13	14.25	44.53
Polyp	10	10	8.88	17.02

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.87
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.04
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.79
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.59
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.70
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.40
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.53
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.50
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.37
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.33
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.17
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.16
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.82
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.84
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.72
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.35
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.38
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.56
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.17
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.07
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.71
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.32
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.38
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.21
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.12
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.74
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.37
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.13
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.10
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.03
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.81
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.69
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.06
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.78
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.65
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.54
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.03
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.98
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.97
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.98
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.35
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.26
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.99
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.69
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.79
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.20
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.45
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.11
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.94
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.74
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.50
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.84
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.60
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.88
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.06
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.97
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.35
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.12
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.15
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.39
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.07
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.01
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.14
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.80
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.58
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.64
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.82
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.88
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.61
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.78
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.68
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.39
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.53
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.79
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.77
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.39
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.01
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.72
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.08
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.01
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.53
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.09
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.40
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.92
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.73
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.02
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	13.30
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.76
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	12.46
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.56
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.84
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.91
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.83
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.56
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.61

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.