Gene detail

Detailed information of OS493_015983-T1 in Lophelia pertusa

Genomic Location: scaffold_48:2281706...2282496
NR annotation: KAJ7333890.1, hypothetical protein OS493_015983 [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)

UniProt accession	Description
Q45401	Carbohydrate deacetylase OS=Geobacillus stearothermophilus OX=1422 GN=celC PE=3 SV=1
Q928S6	Carbohydrate deacetylase 2 OS=Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262) OX=272626 GN=lin2456 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006942 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04794 all species →	YdjC	YdjC-like protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011330 all species →	Homologous_superfamily	Glycoside hydrolase/deacetylase, beta/alpha-barrel	Interproscan
IPR006879 all species →	Family	Carbohydrate deacetylase YdjC-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31609 all species →	YDJC DEACETYLASE FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0019213 all species →	Molecular Function	deacetylase activity	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_015983-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_015983-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

90TPM > 0

7Conditions

9.5Max TPM

1.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	13	1.17	3.14
polyp at pH7 6	18	10	1.12	3.67
coral polyp · control treatment	16	15	2.33	9.50
coral polyp · oil and dispersant treatment	16	16	2.01	8.23
coral polyp · oil treatment	16	16	2.54	6.23
coral polyp · dispersant treatment	16	13	1.18	3.12
Polyp	10	7	1.00	2.59

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.14
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.83
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.55
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.24
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.87
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.83
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.39
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.34
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.03
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.02
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.88
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.59
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.30
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.67
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.16
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.01
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.37
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.14
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.82
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.51
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.13
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.78
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.55
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.50
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.79
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.70
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.66
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.31
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.03
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.80
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.78
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.43
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.19
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.11
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.87
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.18
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.23
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.34
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.68
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.98
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.02
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.94
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.72
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.26
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.09
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.07
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.07
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.99
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.39
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.35
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.32
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.23
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.14
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.56
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.30
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.90
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.82
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.73
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.22
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.92
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.85
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.67
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.64
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.32
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.03
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.89
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.37
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.12
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.60
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.40
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.68
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.65
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.39
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.07
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.93
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.85
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.78
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.07
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.59
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.92
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.34
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.31
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.28
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.92
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.65
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746669	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.