Gene detail

Detailed information of OS493_000021-T1 in Lophelia pertusa

Genomic Location: scaffold_1:240386...250634
NR annotation: KAJ7394219.1, hypothetical protein OS493_000021 [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
Q9C102	Glutamate synthase [NADH] OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=glt1 PE=1 SV=1
Q0DG35	Glutamate synthase 2 [NADH], chloroplastic OS=Oryza sativa subsp. japonica OX=39947 GN=Os05g0555600 PE=2 SV=2
Q0JKD0	Glutamate synthase 1 [NADH], chloroplastic OS=Oryza sativa subsp. japonica OX=39947 GN=Os01g0681900 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002031 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01493 all species →	GXGXG	GXGXG motif	Family	Interproscan
PF01645 all species →	Glu_synthase	Conserved region in glutamate synthase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036485 all species →	Homologous_superfamily	Glutamate synthase, alpha subunit, C-terminal domain superfamily	Interproscan
IPR002489 all species →	Domain	Glutamate synthase, alpha subunit, C-terminal	Interproscan
IPR002932 all species →	Domain	Glutamate synthase domain	Interproscan
IPR013785 all species →	Homologous_superfamily	Aldolase-type TIM barrel	Interproscan
IPR051394 all species →	Family	Glutamate Synthase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43100 all species →	GLUTAMATE SYNTHASE [NADPH] SMALL CHAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0006537 all species →	Biological Process	glutamate biosynthetic process	Interproscan
GO:0015930 all species →	Molecular Function	glutamate synthase activity	Interproscan
GO:0016638 all species →	Molecular Function	oxidoreductase activity, acting on the CH-NH2 group of donors	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_000021-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_000021-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

97TPM > 0

7Conditions

39.9Max TPM

4.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	2.50	5.13
polyp at pH7 6	18	12	2.43	6.70
coral polyp · control treatment	16	16	6.12	27.24
coral polyp · oil and dispersant treatment	16	16	7.30	39.93
coral polyp · oil treatment	16	16	4.80	11.34
coral polyp · dispersant treatment	16	15	5.21	12.58
Polyp	10	7	0.86	2.12

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	-	5.13
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.81
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.47
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.97
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.88
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.65
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.31
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.95
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.68
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.40
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.16
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.93
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.65
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.65
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.70
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.39
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.99
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.61
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.16
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.85
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.11
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.60
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.47
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.46
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.39
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.01
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.24
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.35
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.49
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.42
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.60
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.43
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.20
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.11
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.95
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.26
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.12
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.66
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.64
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.63
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.65
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.21
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.93
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.75
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.72
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.19
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.87
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.72
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.32
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.72
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.30
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.33
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.45
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.02
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.51
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.25
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.04
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.61
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.34
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.34
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.56
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.13
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.11
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.91
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.57
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.22
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.98
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.57
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.45
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.39
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.12
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.27
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.89
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.86
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.58
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.82
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.81
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.12
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.42
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.56
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.64
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.31
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.11
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.07
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.72
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.19
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.97
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.28
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.12
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.99
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.30
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.76
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.45
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.23
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
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.