Gene detail

Detailed information of OS493_023032-T1 in Lophelia pertusa

Genomic Location: scaffold_99:1080743...1081120
NR annotation: KAJ7378496.1, hypothetical protein OS493_023032 [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)	OG0001750 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09619 all species →	YscW	Type III secretion system lipoprotein chaperone (YscW)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039366 all species →	Family	Type 3 secretion system pilotin	Interproscan

PANTHER

No PANTHER signature was detected for OS493_023032-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

No Gene Ontology signature was detected for OS493_023032-T1. This gene does have a gene model — the search simply returned no hit.

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_023032-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_023032-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

52.7Max TPM

24.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	25.50	33.32
polyp at pH7 6	18	18	25.21	47.53
coral polyp · control treatment	16	16	27.05	41.86
coral polyp · oil and dispersant treatment	16	16	18.12	37.08
coral polyp · oil treatment	16	16	29.67	52.69
coral polyp · dispersant treatment	16	16	19.63	43.64
Polyp	10	10	25.03	38.15

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.32
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.25
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.13
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.93
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.90
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.51
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.85
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.56
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.65
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.21
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.27
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.36
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.25
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.88
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.59
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.82
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.53
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.97
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.53
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.53
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.99
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.38
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.76
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.04
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.36
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.90
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.53
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.35
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.87
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.41
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.85
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.86
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.54
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.83
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.36
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.65
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.86
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.15
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.20
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.80
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.96
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.13
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.52
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.37
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.77
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.97
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.67
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.95
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.58
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.78
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.18
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.92
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.08
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.01
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.46
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.53
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.91
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.41
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.53
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.25
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.42
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.70
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.88
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.69
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.64
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.01
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.84
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.51
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.69
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.81
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.04
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.07
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.24
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.39
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.85
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.69
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.14
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.68
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.01
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.04
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.08
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.64
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.89
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.46
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.60
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.58
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.31
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.18
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.03
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.74
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.94
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.90
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.41
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.40
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.35
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.10
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.51
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	38.15
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	33.60
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	31.58
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	28.91
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	28.74
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	28.72
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	21.58
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	20.86
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.27
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.92

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.