Gene detail

Detailed information of OS493_011523-T1 in Lophelia pertusa

Genomic Location: scaffold_29:2102305...2106679
NR annotation: KAJ7363241.1, hypothetical protein OS493_011523 [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
O02691	3-hydroxyacyl-CoA dehydrogenase type-2 OS=Bos taurus OX=9913 GN=HSD17B10 PE=1 SV=3
O70351	3-hydroxyacyl-CoA dehydrogenase type-2 OS=Rattus norvegicus OX=10116 GN=Hsd17b10 PE=1 SV=3
Q99714	3-hydroxyacyl-CoA dehydrogenase type-2 OS=Homo sapiens OX=9606 GN=HSD17B10 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003026 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00106 all species →	adh_short	short chain dehydrogenase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR002347 all species →	Family	Short-chain dehydrogenase/reductase SDR	Interproscan
IPR020904 all species →	Conserved_site	Short-chain dehydrogenase/reductase, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43658 all species →	SHORT-CHAIN DEHYDROGENASE/REDUCTASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0004303 all species →	Molecular Function	estradiol 17-beta-dehydrogenase [NAD(P)+] activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006631 all species →	Biological Process	fatty acid metabolic process	Interproscan
GO:0008209 all species →	Biological Process	androgen metabolic process	Interproscan
GO:0008210 all species →	Biological Process	estrogen 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K08683	HSD17B10; 3-hydroxyacyl-CoA dehydrogenase / 3-hydroxy-2-methylbutyryl-CoA dehydrogenase	EC:1.1.1.35 EC:1.1.1.178	Exosome	ko04147	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_011523-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

49.8Max TPM

19.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	19.01	31.69
polyp at pH7 6	18	18	20.80	28.51
coral polyp · control treatment	16	16	22.09	40.94
coral polyp · oil and dispersant treatment	16	16	17.73	33.77
coral polyp · oil treatment	16	16	17.34	49.76
coral polyp · dispersant treatment	16	16	19.15	48.50
Polyp	10	10	18.15	37.57

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.69
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.28
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.27
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.79
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.58
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.97
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.48
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.05
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.22
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.22
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.21
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.60
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.27
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.86
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.05
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.96
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.74
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.51
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.33
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.43
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.42
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.99
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.99
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.60
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.78
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.10
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.88
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.30
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.18
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.16
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.99
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.62
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.98
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.68
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.94
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.52
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.87
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.33
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.31
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.73
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.71
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.62
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.61
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.67
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.33
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.47
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.57
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.09
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.77
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.49
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.08
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.68
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.28
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.19
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.66
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.50
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.53
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.07
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.34
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.92
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.85
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.34
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.76
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.48
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.76
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.99
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.22
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.80
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.63
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.54
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.57
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.75
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.04
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.86
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.15
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.44
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.63
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.50
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.15
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.81
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.94
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.27
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.64
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.02
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.85
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.83
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.01
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.17
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.20
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.51
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.49
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.05
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	37.57
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	29.22
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	21.05
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	20.85
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	19.37
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	17.36
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.92
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.71
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.30
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.14

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.