Gene detail

Detailed information of OS493_005871-T1 in Lophelia pertusa

Genomic Location: scaffold_12:1922488...1930852
NR annotation: KAJ7339473.1, hypothetical protein OS493_005871 [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)	OG0005596 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_005871-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR011029 all species →	Homologous_superfamily	Death-like domain superfamily	Interproscan
IPR047526 all species →	Family	Tumor necrosis factor receptor superfamily member 19/27/EDAR	Interproscan
IPR001368 all species →	Domain	TNFR/NGFR cysteine-rich region	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12120 all species →	TNFR-CYS DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0038023 all species →	Molecular Function	signaling receptor activity	Interproscan
GO:0043123 all species →	Biological Process	positive regulation of canonical NF-kappaB signal transduction	Interproscan
GO:0046330 all species →	Biological Process	positive regulation of JNK cascade	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_005871-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_005871-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

281.0Max TPM

36.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.82	43.51
polyp at pH7 6	18	18	24.05	39.90
coral polyp · control treatment	16	16	25.55	72.09
coral polyp · oil and dispersant treatment	16	16	52.97	109.61
coral polyp · oil treatment	16	16	22.07	47.93
coral polyp · dispersant treatment	16	16	99.47	280.95
Polyp	10	10	8.37	18.57

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.51
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.46
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.52
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.50
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.74
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.36
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.14
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.77
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.51
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.47
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.93
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.68
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.65
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.43
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.22
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.75
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.14
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.90
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.28
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.24
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.65
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.76
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.37
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.98
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.23
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.32
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.65
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.09
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.82
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.45
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.88
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.73
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.84
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.62
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.06
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.09
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.66
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.34
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.45
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.05
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.82
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.37
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.11
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.95
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.32
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.91
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.56
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.55
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.56
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.17
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.89
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	109.61
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	102.85
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.67
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	79.48
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.10
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.04
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.43
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.26
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.11
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.84
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.51
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.83
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.46
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.23
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.78
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.34
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.93
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.38
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.19
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.70
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.51
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.39
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.17
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.12
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.21
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.47
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.42
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.79
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.72
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.29
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.64
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	280.95
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	235.51
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	202.35
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	197.27
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	105.51
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	88.14
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	84.71
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	67.64
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.03
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.34
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.31
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.78
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.98
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.58
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	18.57
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.02
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.07
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.94
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.21
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.96
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.59
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.33
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.28
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.75

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.