Gene detail

Detailed information of OS493_015982-T1 in Lophelia pertusa

Genomic Location: scaffold_48:2280846...2281620
NR annotation: KAJ7333889.1, hypothetical protein OS493_015982 [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
Q6DJC2	Carbohydrate deacetylase OS=Xenopus tropicalis OX=8364 GN=ydjc PE=2 SV=1
Q569M2	Carbohydrate deacetylase OS=Xenopus laevis OX=8355 GN=ydjc PE=2 SV=1
A2BIR6	Carbohydrate deacetylase OS=Danio rerio OX=7955 GN=ydjc 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
IPR006879 all species →	Family	Carbohydrate deacetylase YdjC-like	Interproscan
IPR011330 all species →	Homologous_superfamily	Glycoside hydrolase/deacetylase, beta/alpha-barrel	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_015982-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_015982-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

105TPM > 0

7Conditions

7.7Max TPM

2.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	1.79	3.93
polyp at pH7 6	18	17	2.43	5.09
coral polyp · control treatment	16	16	2.67	7.67
coral polyp · oil and dispersant treatment	16	16	2.34	4.30
coral polyp · oil treatment	16	16	2.55	6.28
coral polyp · dispersant treatment	16	16	1.62	3.31
Polyp	10	8	1.60	4.03

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.93
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.62
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.56
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.52
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.40
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.37
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.91
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.81
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.73
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.67
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.56
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.38
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.04
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.63
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.09
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.88
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.72
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.20
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.12
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.05
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.70
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.66
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.46
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.24
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.88
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.86
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.45
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.40
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.39
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.37
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.36
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.67
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.15
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.50
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.19
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.97
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.95
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.84
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.46
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.20
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.14
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.71
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.64
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.53
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.50
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.65
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.30
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.99
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.75
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.74
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.66
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.54
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.41
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.15
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.80
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.63
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.61
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.38
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.32
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.26
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.12
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.28
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.93
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.98
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.78
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.75
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.75
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.73
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.51
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.88
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.78
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.71
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.64
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.54
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.19
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.31
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.23
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.21
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.10
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.97
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.69
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.62
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.21
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.67
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.53
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.42
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.03
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.54
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.23
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.04
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.03
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.87
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.80
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.47
SRR7746667	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.