Gene detail

Detailed information of OS493_015647-T1 in Lophelia pertusa

Genomic Location: scaffold_47:1362540...1363301
NR annotation: KAJ7360543.1, hypothetical protein OS493_015647 [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
O55240	Retinol dehydrogenase 5 OS=Mus musculus OX=10090 GN=Rdh5 PE=1 SV=1
Q27979	Retinol dehydrogenase 5 OS=Bos taurus OX=9913 GN=RDH5 PE=1 SV=1
Q92781	Retinol dehydrogenase 5 OS=Homo sapiens OX=9606 GN=RDH5 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001804 (this species only) · gene tree & orthology

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
IPR002347 all species →	Family	Short-chain dehydrogenase/reductase SDR	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR051468 all species →	Family	Fungal Secondary Metabolite SDRs	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43544 all species →	SHORT-CHAIN DEHYDROGENASE/REDUCTASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K00079	CBR1; carbonyl reductase 1	EC:1.1.1.184 EC:1.1.1.189 EC:1.1.1.197	Chemical carcinogenesis - reactive oxygen species	ko05208	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_015647-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

37.5Max TPM

16.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.11	21.25
polyp at pH7 6	18	18	16.10	21.17
coral polyp · control treatment	16	16	17.51	25.68
coral polyp · oil and dispersant treatment	16	16	18.37	27.33
coral polyp · oil treatment	16	16	18.43	29.79
coral polyp · dispersant treatment	16	16	6.84	15.96
Polyp	10	10	18.40	37.46

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.25
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.80
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.35
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.77
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.94
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.38
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.98
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.92
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.74
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.17
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.62
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.36
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.83
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.29
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.92
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.34
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.94
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.43
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.17
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.61
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.61
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.84
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.59
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.42
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.17
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.14
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.79
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.51
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.45
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.55
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.34
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.80
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.13
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.81
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.94
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.94
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.68
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.35
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.51
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.63
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.89
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.84
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.27
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.34
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.12
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.69
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.23
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.35
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.74
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.65
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.16
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.65
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.33
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.71
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.04
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.11
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.90
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.79
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.78
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.70
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.10
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.91
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.95
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.06
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.95
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.67
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.11
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.79
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.21
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.72
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.97
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.35
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.21
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.92
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.47
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.77
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.32
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.12
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.34
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.29
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.86
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.54
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.96
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.59
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.26
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.13
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.79
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.54
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.97
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.70
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.30
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.77
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.75
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.66
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.64
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.85
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	37.46
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	37.10
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	25.74
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	21.85
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	21.43
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	16.34
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.42
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.37
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.19
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.08

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.