Gene detail

Detailed information of OS493_034321-T1 in Lophelia pertusa

Genomic Location: scaffold_287:142436...144065
NR annotation: KAJ7352716.1, hypothetical protein OS493_034321 [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
P0ABQ3	2-hydroxy-3-oxopropionate reductase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) OX=199310 GN=garR PE=3 SV=1
P0ABQ2	2-hydroxy-3-oxopropionate reductase OS=Escherichia coli (strain K12) OX=83333 GN=garR PE=1 SV=1
P77161	2-hydroxy-3-oxopropionate reductase OS=Escherichia coli (strain K12) OX=83333 GN=glxR PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010563 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03446 all species →	NAD_binding_2	NAD binding domain of 6-phosphogluconate dehydrogenase	Domain	Interproscan
PF14833 all species →	NAD_binding_11	NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008927 all species →	Homologous_superfamily	6-phosphogluconate dehydrogenase-like, C-terminal domain superfamily	Interproscan
IPR006115 all species →	Domain	6-phosphogluconate dehydrogenase, NADP-binding	Interproscan
IPR029154 all species →	Domain	3-hydroxyisobutyrate dehydrogenase-like, NAD-binding domain	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR013328 all species →	Homologous_superfamily	6-phosphogluconate dehydrogenase, domain 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22981 all species →	3-HYDROXYISOBUTYRATE DEHYDROGENASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006574 all species →	Biological Process	valine catabolic process	Interproscan
GO:0008442 all species →	Molecular Function	3-hydroxyisobutyrate dehydrogenase activity	Interproscan
GO:0016616 all species →	Molecular Function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	Interproscan
GO:0050661 all species →	Molecular Function	NADP binding	Interproscan
GO:0051287 all species →	Molecular Function	NAD binding	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_034321-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_034321-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

12.4Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.65	5.73
polyp at pH7 6	18	18	2.99	7.56
coral polyp · control treatment	16	14	1.98	7.48
coral polyp · oil and dispersant treatment	16	15	1.04	3.16
coral polyp · oil treatment	16	14	1.83	9.06
coral polyp · dispersant treatment	16	14	1.34	4.10
Polyp	10	10	5.77	12.37

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.73
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.04
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.62
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.95
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.89
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.83
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.75
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.54
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.36
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.13
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.97
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.96
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.86
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.62
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.61
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.43
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.56
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.56
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.86
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.48
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.42
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.21
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.39
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.33
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.14
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.03
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.65
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.55
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.51
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.51
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.43
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.35
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.32
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.05
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.04
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.48
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.86
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.90
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.24
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.50
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.36
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.32
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.16
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.15
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.77
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.43
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.30
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.17
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.08
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.16
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.98
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.77
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.32
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.07
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.81
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.77
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.62
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.49
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.23
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.19
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.11
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.10
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.09
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.06
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.67
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.99
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.93
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.66
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.52
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.42
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.99
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.50
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.39
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.33
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.27
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.20
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.10
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.26
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.59
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.14
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.81
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.58
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.50
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.14
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.14
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.01
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.64
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.20
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.18
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.14
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.37
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.91
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.80
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.53
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.60
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.40
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.29
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.02
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.01
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.75

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.