Gene detail

Detailed information of OS493_035065-T1 in Lophelia pertusa

Genomic Location: scaffold_307:410514...416716
NR annotation: KAJ7388917.1, hypothetical protein OS493_035065 [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
P14061	17-beta-hydroxysteroid dehydrogenase type 1 OS=Homo sapiens OX=9606 GN=HSD17B1 PE=1 SV=3

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
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:0005829 all species →	Cellular Component	cytosol	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

No KEGG orthology assignment for OS493_035065-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_035065-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

103TPM > 0

7Conditions

14.8Max TPM

3.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	3.91	14.81
polyp at pH7 6	18	16	5.06	14.12
coral polyp · control treatment	16	16	3.43	12.29
coral polyp · oil and dispersant treatment	16	15	3.20	11.28
coral polyp · oil treatment	16	16	3.29	9.31
coral polyp · dispersant treatment	16	16	3.14	8.07
Polyp	10	8	3.15	8.17

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	-	14.81
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.63
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.43
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.93
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.88
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.62
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.22
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.61
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.44
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.36
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.34
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.21
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.17
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.74
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.12
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.49
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.02
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.60
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.59
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.29
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.88
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.42
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.61
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.36
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.79
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.11
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.68
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.22
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.95
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
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.29
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.78
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.57
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.29
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.41
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.34
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.23
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.05
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.95
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.84
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.77
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.49
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.45
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.23
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.23
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.01
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.28
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.33
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.01
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.79
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.42
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.12
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.05
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.16
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.72
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.56
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.17
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.53
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.49
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.38
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.24
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.31
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.88
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.23
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.03
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.89
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.88
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.51
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.28
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.02
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.94
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.37
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.18
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.94
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.14
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.68
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.39
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.07
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.91
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.70
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.73
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.64
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.53
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.34
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.76
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.75
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.33
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.26
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.10
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.73
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.65
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.63
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	8.17
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.81
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.68
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.83
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.03
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.99
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.16
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.79
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.