Gene detail

Detailed information of OS493_022357-T1 in Lophelia pertusa

Genomic Location: scaffold_91:901217...906831
NR annotation: KAJ7390799.1, Tumor necrosis factor receptor super, member 4 [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)	OG0000837 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00531 all species →	Death	Death domain	Domain	Interproscan
PF00020 all species →	TNFR_c6	TNFR/NGFR cysteine-rich region	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000488 all species →	Domain	Death domain	Interproscan
IPR001368 all species →	Domain	TNFR/NGFR cysteine-rich region	Interproscan
IPR011029 all species →	Homologous_superfamily	Death-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46874 all species →	TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 6	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0005031 all species →	Molecular Function	tumor necrosis factor receptor activity	Interproscan
GO:0006924 all species →	Biological Process	activation-induced cell death of T cells	Interproscan
GO:0009897 all species →	Cellular Component	external side of plasma membrane	Interproscan
GO:0031265 all species →	Cellular Component	CD95 death-inducing signaling complex	Interproscan
GO:0032872 all species →	Biological Process	regulation of stress-activated MAPK cascade	Interproscan
GO:0043066 all species →	Biological Process	negative regulation of apoptotic process	Interproscan
GO:0045121 all species →	Cellular Component	membrane raft	Interproscan
GO:0097049 all species →	Biological Process	motor neuron apoptotic process	Interproscan
GO:0097192 all species →	Biological Process	extrinsic apoptotic signaling pathway in absence of ligand	Interproscan
GO:0097527 all species →	Biological Process	necroptotic signaling pathway	Interproscan
GO:2001269 all species →	Biological Process	obsolete positive regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway	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_022357-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_022357-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

152.2Max TPM

45.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	27.40	54.44
polyp at pH7 6	18	18	36.43	63.14
coral polyp · control treatment	16	16	53.35	116.71
coral polyp · oil and dispersant treatment	16	16	73.83	121.13
coral polyp · oil treatment	16	16	36.32	74.54
coral polyp · dispersant treatment	16	16	74.08	152.16
Polyp	10	9	8.67	14.43

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	-	54.44
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.28
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.44
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.99
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.88
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.30
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.21
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.32
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.27
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.96
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.14
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.25
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.83
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.49
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.06
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.85
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.90
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.57
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.14
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.62
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.92
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.82
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.94
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.01
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.53
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.46
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.10
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.06
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.18
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.34
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.90
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.29
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.79
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.95
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.25
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.39
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	116.71
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.88
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.14
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.01
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.82
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.22
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.81
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.99
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.64
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.84
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.39
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.56
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.08
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.96
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.14
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	121.13
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	108.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	99.50
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.16
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.70
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.01
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	81.75
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	79.20
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.88
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.26
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.16
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.98
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.88
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.89
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.21
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.77
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.54
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.42
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.15
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.33
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.90
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.76
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.24
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.66
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.75
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.71
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.07
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.53
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.53
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.67
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.61
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.22
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	152.16
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	130.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	120.60
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	99.67
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	93.60
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	91.17
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	90.93
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	83.10
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	79.84
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.16
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.18
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.75
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.34
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.07
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.62
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.58
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	14.43
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.59
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	13.17
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.40
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.54
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.37
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	7.22
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.48
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.46
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.