Gene detail

Detailed information of OS493_023782-T1 in Lophelia pertusa

Genomic Location: scaffold_107:383989...384802
NR annotation: KAJ7357651.1, Glucosamine-6-phosphate isomerase 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
O88958	Glucosamine-6-phosphate deaminase 1 OS=Mus musculus OX=10090 GN=Gnpda1 PE=1 SV=3
A4FV08	Glucosamine-6-phosphate deaminase 1 OS=Bos taurus OX=9913 GN=GNPDA1 PE=1 SV=1
Q64422	Glucosamine-6-phosphate deaminase 1 OS=Mesocricetus auratus OX=10036 GN=GNPDA1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006163 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_023782-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR037171 all species →	Homologous_superfamily	NagB/RpiA transferase-like	Interproscan
IPR004547 all species →	Family	Glucosamine-6-phosphate isomerase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11280 all species →	GLUCOSAMINE-6-PHOSPHATE ISOMERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004342 all species →	Molecular Function	glucosamine-6-phosphate deaminase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006043 all species →	Biological Process	glucosamine catabolic process	Interproscan
GO:0006044 all species →	Biological Process	N-acetylglucosamine metabolic process	Interproscan
GO:0006046 all species →	Biological Process	N-acetylglucosamine catabolic process	Interproscan
GO:0019262 all species →	Biological Process	N-acetylneuraminate catabolic process	Interproscan
GO:0042802 all species →	Molecular Function	identical protein 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_023782-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_023782-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

39.7Max TPM

15.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.48	20.37
polyp at pH7 6	18	18	13.72	35.25
coral polyp · control treatment	16	16	18.26	29.83
coral polyp · oil and dispersant treatment	16	16	15.06	27.64
coral polyp · oil treatment	16	16	18.88	37.34
coral polyp · dispersant treatment	16	16	16.99	27.39
Polyp	10	10	13.84	39.67

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.37
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.15
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.68
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.31
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.08
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.85
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.79
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.05
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.05
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.83
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.48
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.84
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.35
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.12
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.73
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.40
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.67
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.91
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.25
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.77
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.31
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.55
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.24
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.82
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.15
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.01
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.81
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.72
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.03
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.82
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.47
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.26
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.46
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.23
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.62
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.50
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.83
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.91
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.93
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.75
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.28
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.50
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.10
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.97
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.87
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.71
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.73
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.01
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.82
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.82
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.96
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.97
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.64
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.91
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.97
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.27
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.93
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.74
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.46
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.96
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.53
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.11
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.88
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.02
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.93
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.56
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.08
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.02
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.34
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.34
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.61
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.23
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.25
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.08
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.71
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.83
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.01
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.85
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.33
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.92
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.89
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.74
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.25
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.62
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.39
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.25
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.77
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.49
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.63
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.41
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.36
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.60
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.55
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.36
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.75
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.03
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.51
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.34
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.23
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	39.67
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	20.15
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	16.33
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.76
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.06
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	10.15
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.74
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.92
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.16
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.43

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.