Gene detail

Detailed information of OS493_010738-T1 in Lophelia pertusa

Genomic Location: scaffold_26:3598056...3605359
NR annotation: KAJ7386327.1, hypothetical protein OS493_010738 [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
A3DH97	Anti-sigma-I factor RsgI6 OS=Acetivibrio thermocellus (strain ATCC 27405 / DSM 1237 / JCM 9322 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372) OX=203119 GN=rsgI6 PE=1 SV=1
A0A1P8AWH8	Endo-1,4-beta-xylanase 1 OS=Arabidopsis thaliana OX=3702 GN=XYN1 PE=1 SV=1
F4JG10	Endo-1,4-beta-xylanase 3 OS=Arabidopsis thaliana OX=3702 GN=XYN3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004413 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00331 all species →	Glyco_hydro_10	Glycosyl hydrolase family 10	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001000 all species →	Domain	Glycoside hydrolase family 10 domain	Interproscan
IPR044846 all species →	Family	Glycoside hydrolase family 10	Interproscan
IPR017853 all species →	Homologous_superfamily	Glycoside hydrolase superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31490 all species →	GLYCOSYL HYDROLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004553 all species →	Molecular Function	hydrolase activity, hydrolyzing O-glycosyl compounds	Interproscan
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_010738-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_010738-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

104TPM > 0

7Conditions

14.9Max TPM

4.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	3.94	11.36
polyp at pH7 6	18	16	4.46	14.86
coral polyp · control treatment	16	16	5.96	12.00
coral polyp · oil and dispersant treatment	16	15	3.97	9.21
coral polyp · oil treatment	16	16	5.56	11.98
coral polyp · dispersant treatment	16	16	3.57	8.70
Polyp	10	8	2.06	6.13

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	-	11.36
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.60
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.84
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.54
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.37
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.36
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.34
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.12
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.10
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.40
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.38
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.13
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.88
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.47
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.80
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.28
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.03
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.86
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.87
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.73
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.35
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.65
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.44
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.25
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.40
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.97
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.57
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.38
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.35
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.22
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.74
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.77
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.72
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.36
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.23
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.69
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.06
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.75
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.01
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.01
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.71
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.24
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.51
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.40
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.31
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.64
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.43
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.21
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.71
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.11
SRR16706004	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	4.82
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.66
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.89
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.82
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.74
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.84
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.38
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.92
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.72
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.66
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.62
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.98
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.73
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.23
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.90
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.27
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.75
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.53
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.08
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.88
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.83
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.64
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.16
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.50
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.04
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.55
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.93
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.70
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.75
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.73
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.58
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.48
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.42
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.31
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.33
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.15
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.80
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.77
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.06
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.95
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.70
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.49
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.90
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.13
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.69
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.76
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.42
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.05
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.76
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.45
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.36
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.