Gene detail

Detailed information of OS493_027066-T1 in Lophelia pertusa

Genomic Location: scaffold_144:387093...390599
NR annotation: KAJ7327376.1, hypothetical protein OS493_027066 [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)	OG0000268 (this species only)

Pfam domain

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

InterPro

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

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
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

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_027066-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_027066-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

172.7Max TPM

27.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.92	18.76
polyp at pH7 6	18	18	15.00	20.71
coral polyp · control treatment	16	16	24.34	52.49
coral polyp · oil and dispersant treatment	16	16	61.04	172.71
coral polyp · oil treatment	16	16	32.82	70.82
coral polyp · dispersant treatment	16	16	38.72	142.57
Polyp	10	10	9.31	24.58

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.09
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.09
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.28
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.97
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.30
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.47
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.77
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.42
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.26
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.05
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.94
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.46
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.14
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.92
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.57
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.20
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.80
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.71
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.93
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.73
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.48
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.81
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.98
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.67
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.42
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.36
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.13
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.79
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.97
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.80
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.13
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.90
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.42
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.64
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.05
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.49
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.54
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.11
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.65
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.05
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.76
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.60
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.07
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.41
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.17
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.92
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.64
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.20
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.73
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.49
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.55
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	172.71
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	135.93
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	124.82
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	81.68
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	79.25
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.73
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.24
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.25
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.43
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.97
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.58
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.23
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.15
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.12
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.07
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.82
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.60
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.86
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.82
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.52
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.58
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.72
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.93
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.27
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.73
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.61
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.65
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.01
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.23
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.01
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.71
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	142.57
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	92.07
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.71
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.51
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.29
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.33
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.83
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.93
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.02
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.15
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.93
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.66
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.63
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.92
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.92
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	24.58
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	18.86
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.91
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.34
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.74
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.36
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.04
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.59
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.02
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.71

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.