Gene detail

Detailed information of OS493_020434-T1 in Lophelia pertusa

Genomic Location: scaffold_75:713169...721666
NR annotation: KAJ7378836.1, 2,3-bisphosphoglycerate-independent phosphoglycerate mutase [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
G5EFZ1	2,3-bisphosphoglycerate-independent phosphoglycerate mutase OS=Caenorhabditis elegans OX=6239 GN=ipgm-1 PE=1 SV=1
I6LDA6	2,3-bisphosphoglycerate-independent phosphoglycerate mutase OS=Onchocerca volvulus OX=6282 GN=ipgm-1 PE=1 SV=1
Q4VWF8	2,3-bisphosphoglycerate-independent phosphoglycerate mutase OS=Brugia malayi OX=6279 GN=ipgm-1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003305 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01676 all species →	Metalloenzyme	Metalloenzyme superfamily	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017850 all species →	Homologous_superfamily	Alkaline-phosphatase-like, core domain superfamily	Interproscan
IPR006124 all species →	Domain	Metalloenzyme	Interproscan
IPR005995 all species →	Family	Phosphoglycerate mutase, 2,3-bisphosphoglycerate-independent	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31637 all species →	2,3-BISPHOSPHOGLYCERATE-INDEPENDENT PHOSPHOGLYCERATE MUTASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0004619 all species →	Molecular Function	phosphoglycerate mutase activity	Interproscan
GO:0006007 all species →	Biological Process	glucose catabolic process	Interproscan
GO:0030145 all species →	Molecular Function	manganese ion binding	Interproscan
GO:0044262 all species →	Biological Process	obsolete cellular carbohydrate metabolic process	Interproscan
GO:0046537 all species →	Molecular Function	2,3-bisphosphoglycerate-independent phosphoglycerate mutase 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_020434-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_020434-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

25.9Max TPM

6.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	4.08	9.34
polyp at pH7 6	18	15	4.41	9.36
coral polyp · control treatment	16	16	9.53	16.46
coral polyp · oil and dispersant treatment	16	16	8.59	25.90
coral polyp · oil treatment	16	16	8.39	17.77
coral polyp · dispersant treatment	16	14	8.11	18.52
Polyp	10	9	4.24	9.03

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	-	9.34
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.65
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.91
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.41
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.97
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.63
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.16
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.84
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.84
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.68
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.63
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.49
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.71
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.43
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.39
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.24
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.10
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.36
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.08
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.18
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.20
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.80
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.02
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.74
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.61
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.47
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.28
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.27
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.97
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.85
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.55
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.46
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.47
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.05
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.86
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.93
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.90
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.87
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.17
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.27
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.45
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.06
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.92
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.65
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.02
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.84
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.51
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.90
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.90
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.95
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.05
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.02
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.92
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.54
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.61
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.63
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.10
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.42
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.21
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.87
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.96
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.33
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.77
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.64
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.21
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.64
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.61
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.59
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.36
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.57
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.26
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.03
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.46
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.88
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.65
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.23
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.74
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.55
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.52
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.57
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.72
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.72
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.03
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.43
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.87
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.52
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.26
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.47
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.70
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.60
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.24
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.02
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.03
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.49
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.72
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.45
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.97
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.67
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.22
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.05
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.85
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.