Gene detail

Detailed information of OS493_015193-T1 in Lophelia pertusa

Genomic Location: scaffold_44:1870469...1870888
NR annotation: KAJ7385608.1, hypothetical protein OS493_015193 [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)	OG0000631 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_015193-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR011071 all species →	Homologous_superfamily	Polysaccharide lyase family 8-like, C-terminal	Interproscan
IPR039174 all species →	Family	Chondroitin sulfate ABC lyase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR37322 all species →	-	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0006027 all species →	Biological Process	glycosaminoglycan catabolic process	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_015193-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_015193-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

349.9Max TPM

39.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	54.56	130.30
polyp at pH7 6	18	18	100.92	349.89
coral polyp · control treatment	16	16	19.00	77.61
coral polyp · oil and dispersant treatment	16	16	18.21	78.58
coral polyp · oil treatment	16	16	41.76	214.15
coral polyp · dispersant treatment	16	16	12.94	91.93
Polyp	10	9	8.18	36.65

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	130.30
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	124.68
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	91.31
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	79.39
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.94
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	68.86
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	66.92
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.73
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.60
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.38
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.67
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.03
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.39
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.70
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.73
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.98
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.82
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.59
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	349.89
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	340.27
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	330.11
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	322.77
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	71.79
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	70.38
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.33
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.31
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.79
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.08
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.70
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.17
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.54
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.30
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.96
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.09
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.58
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.61
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.53
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.25
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.76
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.67
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.07
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.94
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.77
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.36
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.32
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.25
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.31
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.29
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.06
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.28
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.53
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.58
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.26
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.77
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.78
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.57
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.41
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.83
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.85
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.94
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.35
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.92
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.65
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.50
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.39
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.94
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.60
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	214.15
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	189.42
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.48
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.04
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.49
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.13
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.30
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.48
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.45
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.13
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.77
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.28
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.74
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.14
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.82
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.31
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	91.93
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.47
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.71
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.75
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.04
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.52
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.72
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.88
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.76
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.02
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.73
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.46
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.41
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.42
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.37
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	36.65
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	25.96
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.77
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.92
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.63
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.96
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.98
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.67
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.29
SRR23025713	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.