Gene detail

Detailed information of OS493_006363-T1 in Lophelia pertusa

Genomic Location: scaffold_13:2531521...2565683
NR annotation: KAJ7393391.1, hypothetical protein OS493_006363 [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
Q5F3T9	UDP-glucose 6-dehydrogenase OS=Gallus gallus OX=9031 GN=UGDH PE=2 SV=1
O70475	UDP-glucose 6-dehydrogenase OS=Mus musculus OX=10090 GN=Ugdh PE=1 SV=1
O70199	UDP-glucose 6-dehydrogenase OS=Rattus norvegicus OX=10116 GN=Ugdh PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004194 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03721 all species →	UDPG_MGDP_dh_N	UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain	Domain	Interproscan
PF03720 all species →	UDPG_MGDP_dh_C	UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain	Domain	Interproscan
PF00984 all species →	UDPG_MGDP_dh	UDP-glucose/GDP-mannose dehydrogenase family, central domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001732 all species →	Domain	UDP-glucose/GDP-mannose dehydrogenase, N-terminal	Interproscan
IPR014027 all species →	Domain	UDP-glucose/GDP-mannose dehydrogenase, C-terminal	Interproscan
IPR017476 all species →	Family	UDP-glucose/GDP-mannose dehydrogenase	Interproscan
IPR014026 all species →	Domain	UDP-glucose/GDP-mannose dehydrogenase, dimerisation	Interproscan
IPR028356 all species →	Family	UDP-glucose 6-dehydrogenase, eukaryotic type	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR036220 all species →	Homologous_superfamily	UDP-glucose/GDP-mannose dehydrogenase, C-terminal domain superfamily	Interproscan
IPR008927 all species →	Homologous_superfamily	6-phosphogluconate dehydrogenase-like, C-terminal domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11374 all species →	UDP-GLUCOSE DEHYDROGENASE/UDP-MANNAC DEHYDROGENASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016616 all species →	Molecular Function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	Interproscan
GO:0051287 all species →	Molecular Function	NAD binding	Interproscan
GO:0003979 all species →	Molecular Function	UDP-glucose 6-dehydrogenase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006024 all species →	Biological Process	glycosaminoglycan biosynthetic 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
K00012	UGDH, ugd; UDPglucose 6-dehydrogenase	EC:1.1.1.22	O-Antigen nucleotide sugar biosynthesis	ko00541	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_006363-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

109TPM > 0

7Conditions

24.0Max TPM

8.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.28	13.09
polyp at pH7 6	18	18	8.49	17.80
coral polyp · control treatment	16	16	11.49	24.02
coral polyp · oil and dispersant treatment	16	16	8.75	16.94
coral polyp · oil treatment	16	16	10.21	20.00
coral polyp · dispersant treatment	16	16	7.00	12.93
Polyp	10	9	5.75	16.45

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.09
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.57
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.08
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.08
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.90
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.01
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.98
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.93
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.77
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.25
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.77
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.54
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.42
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.07
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.88
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.18
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.17
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.80
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.46
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.36
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.47
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.58
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.35
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.30
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.86
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.62
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.20
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.20
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.17
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.92
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.70
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.64
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.33
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.02
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.02
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.97
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.77
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.68
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.50
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.60
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.25
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.81
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.71
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.50
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.98
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.51
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.83
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.53
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.71
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.37
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.94
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.64
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.29
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.12
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.74
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.70
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.59
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.26
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.18
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.96
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.60
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.53
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.96
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.07
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.39
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.84
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.20
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.54
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.56
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.91
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.81
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.67
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.62
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.63
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.13
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.02
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.96
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.06
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.42
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.02
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.93
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.41
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.99
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.76
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.26
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.97
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.66
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.34
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.56
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.95
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.95
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.74
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.55
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.27
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.44
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	16.45
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	14.68
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.57
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.08
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.37
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.20
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.61
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.08
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.48
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.