Gene detail

Detailed information of OS493_000424-T1 in Lophelia pertusa

Genomic Location: scaffold_1:5159519...5162558
NR annotation: KAJ7394606.1, hypothetical protein OS493_000424 [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
Q9N126	Retinol dehydrogenase 8 OS=Bos taurus OX=9913 GN=RDH8 PE=1 SV=1
Q9NYR8	Retinol dehydrogenase 8 OS=Homo sapiens OX=9606 GN=RDH8 PE=1 SV=1
P51657	Estradiol 17-beta-dehydrogenase 1 OS=Rattus norvegicus OX=10116 GN=Hsd17b1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000498 (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
IPR020904 all species →	Conserved_site	Short-chain dehydrogenase/reductase, conserved site	Interproscan
IPR002347 all species →	Family	Short-chain dehydrogenase/reductase SDR	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43391 all species →	RETINOL DEHYDROGENASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	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
K11150	RDH8; retinol dehydrogenase 8	EC:1.1.1.-	Retinol metabolism	ko00830	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_000424-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

131.5Max TPM

47.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	28.46	49.58
polyp at pH7 6	18	18	32.98	47.44
coral polyp · control treatment	16	16	45.39	91.56
coral polyp · oil and dispersant treatment	16	16	77.05	124.17
coral polyp · oil treatment	16	16	71.34	131.50
coral polyp · dispersant treatment	16	16	45.57	80.80
Polyp	10	10	23.59	66.53

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	-	49.58
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.53
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.05
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.62
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.34
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.64
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.51
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.45
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.12
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.79
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.78
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.75
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.75
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.15
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.27
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.09
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.97
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.85
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.44
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.92
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.67
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.19
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.07
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.58
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.37
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.36
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.87
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.74
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.56
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.55
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.16
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.26
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.47
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.33
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.71
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	91.56
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.44
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.74
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.96
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.89
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.65
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.98
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.08
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.99
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.50
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.42
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.40
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.31
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.03
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.01
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.30
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	124.17
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	114.03
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	110.17
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	104.72
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	103.33
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	96.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	91.11
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	89.24
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.30
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.66
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.84
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.71
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.23
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.38
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.82
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.99
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	131.50
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	126.10
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	106.47
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	100.43
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	91.47
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.96
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	81.99
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.92
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.98
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.42
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.94
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.18
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.08
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.11
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.67
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.26
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.80
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	74.69
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.77
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.33
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.61
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.57
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.28
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.92
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.97
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.15
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.67
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.97
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.58
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.38
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.04
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.30
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	66.53
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	46.52
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	30.21
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	20.69
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.19
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	18.02
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	14.06
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	12.32
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.90
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.51

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.