Gene detail

Detailed information of OS493_031525-T1 in Lophelia pertusa

Genomic Location: scaffold_219:439943...442739
NR annotation: KAJ7376929.1, hypothetical protein OS493_031525 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002759 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01717 all species →	Meth_synt_2	Cobalamin-independent synthase, Catalytic domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR038071 all species →	Homologous_superfamily	UROD/MetE-like superfamily	Interproscan
IPR002629 all species →	Domain	Cobalamin-independent methionine synthase MetE, C-terminal/archaeal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR30519 all species →	5-METHYLTETRAHYDROPTEROYLTRIGLUTAMATE--HOMOCYSTEINE METHYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003871 all species →	Molecular Function	5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0009086 all species →	Biological Process	methionine 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

No KEGG orthology assignment for OS493_031525-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_031525-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

104TPM > 0

7Conditions

14.3Max TPM

4.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.69	11.86
polyp at pH7 6	18	15	4.98	10.04
coral polyp · control treatment	16	16	3.96	7.85
coral polyp · oil and dispersant treatment	16	15	1.91	5.88
coral polyp · oil treatment	16	16	4.83	9.58
coral polyp · dispersant treatment	16	16	2.57	5.50
Polyp	10	8	5.40	14.33

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.86
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.81
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.72
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.81
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.22
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.71
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.55
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.47
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.41
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.69
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.55
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.51
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.41
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.37
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.73
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.59
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.54
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.49
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.04
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.03
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.24
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.71
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.89
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.04
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.61
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.49
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.47
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.35
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.38
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.03
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.94
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.11
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.30
SRR11359513	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
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.85
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.56
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.72
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.47
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.30
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.02
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.89
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.84
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.49
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.21
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.11
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.17
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.72
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.26
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.14
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.88
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.31
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.12
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.52
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.21
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.64
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.63
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.58
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.47
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.24
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.13
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.08
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.67
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.56
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.58
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.25
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.75
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.60
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.36
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.14
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.83
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.69
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.69
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.04
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.79
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.65
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.08
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.94
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.58
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.38
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.50
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.16
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.85
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.74
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.18
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.88
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.67
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.35
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.09
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.43
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.40
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.37
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.31
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.56
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	14.33
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.64
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.28
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.53
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.10
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.60
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.61
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.94
SRR7746667	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.