Gene detail

Detailed information of OS493_007560-T1 in Lophelia pertusa

Genomic Location: scaffold_16:3858276...3861559
NR annotation: KAJ7374454.1, hydrolase [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)	OG0001340 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_007560-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR052740 all species →	Family	Carbohydrate Esterase 4	Interproscan
IPR011330 all species →	Homologous_superfamily	Glycoside hydrolase/deacetylase, beta/alpha-barrel	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45985 all species →	-	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005975 all species →	Biological Process	carbohydrate metabolic 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_007560-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_007560-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

104.7Max TPM

25.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	35.26	62.37
polyp at pH7 6	18	18	16.85	39.09
coral polyp · control treatment	16	16	33.69	104.71
coral polyp · oil and dispersant treatment	16	16	26.93	94.13
coral polyp · oil treatment	16	16	24.04	100.21
coral polyp · dispersant treatment	16	16	21.68	51.17
Polyp	10	10	15.22	29.88

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.37
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.79
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.32
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.93
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.07
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.05
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.65
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.11
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.61
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.19
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.36
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.73
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.48
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.25
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.53
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.62
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.09
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.79
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.23
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.93
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.60
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.28
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.42
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.04
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.78
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.56
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.74
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.09
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.72
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.37
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.05
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.31
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.51
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.79
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	104.71
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.36
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.24
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.48
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.29
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.43
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.19
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.25
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.17
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.64
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.83
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.77
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.25
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.75
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.10
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	94.13
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.31
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.53
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.85
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.27
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.70
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.45
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.09
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.08
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.93
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.64
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.25
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.29
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.74
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.58
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.05
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	100.21
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.52
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.88
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.87
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.84
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.87
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.77
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.44
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.70
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.54
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.66
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.66
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.86
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.66
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.47
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.17
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.83
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.99
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.40
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.60
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.56
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.36
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.43
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.20
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.71
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.95
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.04
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.37
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.16
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.06
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	29.88
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	27.76
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	21.77
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	20.03
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	14.36
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.40
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.03
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.52
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.34
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.09

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.