Gene detail

Detailed information of OS493_010668-T1 in Lophelia pertusa

Genomic Location: scaffold_26:2043749...2048851
NR annotation: KAJ7386264.1, Phosphomannomutase 1 [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
Q1W376	Phosphomannomutase OS=Glycine max OX=3847 GN=PMM PE=1 SV=1
Q259G4	Phosphomannomutase OS=Oryza sativa subsp. indica OX=39946 GN=PMM PE=3 SV=1
Q7XPW5	Phosphomannomutase OS=Oryza sativa subsp. japonica OX=39947 GN=PMM PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007037 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03332 all species →	PMM	Eukaryotic phosphomannomutase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005002 all species →	Family	Phosphomannomutase	Interproscan
IPR006379 all species →	Family	HAD-superfamily hydrolase, subfamily IIB	Interproscan
IPR036412 all species →	Homologous_superfamily	HAD-like superfamily	Interproscan
IPR043169 all species →	Homologous_superfamily	Phosphomannomutase, cap domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10466 all species →	PHOSPHOMANNOMUTASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004615 all species →	Molecular Function	phosphomannomutase activity	Interproscan
GO:0009298 all species →	Biological Process	GDP-mannose biosynthetic process	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006013 all species →	Biological Process	mannose metabolic process	Interproscan
GO:0006487 all species →	Biological Process	protein N-linked glycosylation	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
K17497	PMM; phosphomannomutase	EC:5.4.2.8	Amino sugar and nucleotide sugar metabolism	ko00520	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_010668-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

138.8Max TPM

55.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	45.26	69.80
polyp at pH7 6	18	18	42.57	63.16
coral polyp · control treatment	16	16	57.28	116.58
coral polyp · oil and dispersant treatment	16	16	58.99	114.67
coral polyp · oil treatment	16	16	49.60	61.36
coral polyp · dispersant treatment	16	16	81.04	138.83
Polyp	10	10	54.73	67.51

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	-	69.80
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	69.31
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.91
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	55.07
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.25
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.26
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.91
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.26
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.93
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.20
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.90
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.13
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.82
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.28
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.20
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.41
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.48
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.57
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.16
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.47
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.49
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.32
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.03
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.52
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.83
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.80
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.38
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.67
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.46
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.41
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.66
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.75
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.31
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.88
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.53
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.59
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	116.58
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.16
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.88
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.31
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.54
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.96
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.75
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.51
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.05
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.99
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.76
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.85
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.01
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.94
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.42
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	114.67
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.59
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.53
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.17
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.77
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.92
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.21
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.69
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.15
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.09
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.96
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.46
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.42
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.06
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.36
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.54
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.78
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.66
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.92
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.82
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.44
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.84
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.11
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.42
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.71
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.54
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.33
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.95
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.26
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.91
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	138.83
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	121.49
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	104.65
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	102.95
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	87.05
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	85.54
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	75.52
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	74.67
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	74.30
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	71.09
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.84
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.07
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	59.68
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.75
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	67.51
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	66.22
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	65.69
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	57.66
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	54.67
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	50.74
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	48.36
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	48.28
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	47.26
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	40.88

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.