Gene detail

Detailed information of OS493_031534-T1 in Lophelia pertusa

Genomic Location: scaffold_219:516625...522693
NR annotation: KAJ7376938.1, hypothetical protein OS493_031534 [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
Q975N4	Methionine synthase OS=Sulfurisphaera tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) OX=273063 GN=metE PE=3 SV=1
C3N775	Methionine synthase OS=Saccharolobus islandicus (strain Y.G.57.14 / Yellowstone #1) OX=439386 GN=metE PE=3 SV=1
C3NGG0	Methionine synthase OS=Saccharolobus islandicus (strain Y.N.15.51 / Yellowstone #2) OX=419942 GN=metE PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002842 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_031534-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR038071 all species →	Homologous_superfamily	UROD/MetE-like superfamily	Interproscan

PANTHER

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

Gene Ontology

No Gene Ontology signature was recorded for OS493_031534-T1 in Lophelia pertusa.

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_031534-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_031534-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

107TPM > 0

7Conditions

64.6Max TPM

18.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	23.28	64.62
polyp at pH7 6	18	17	21.38	54.56
coral polyp · control treatment	16	16	19.06	39.73
coral polyp · oil and dispersant treatment	16	15	14.22	39.81
coral polyp · oil treatment	16	16	20.78	61.22
coral polyp · dispersant treatment	16	16	17.60	33.65
Polyp	10	9	6.71	14.64

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	-	64.62
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	63.14
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.88
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.12
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.62
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.02
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.38
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.07
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.01
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.94
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.77
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.06
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.34
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.25
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.96
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.60
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.20
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.07
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.56
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.17
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.52
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.48
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.75
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.40
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.99
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.80
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.44
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.24
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.82
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.24
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.21
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.54
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.84
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.30
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.73
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.11
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.88
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.19
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.09
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.32
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.23
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.60
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.05
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.66
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.48
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.69
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.53
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.94
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.07
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.36
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.81
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.22
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.84
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.27
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.79
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.26
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.27
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.65
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.22
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.80
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.45
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.42
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.39
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.90
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.24
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.22
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.47
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.57
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.66
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.15
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.27
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.36
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.69
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.53
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.52
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.49
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.47
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.14
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.67
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.51
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.65
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.24
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.59
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.71
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.78
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.19
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.27
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.58
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.59
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.92
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.50
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.03
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.99
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.31
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.16
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.12
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.64
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.25
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.95
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.04
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.80
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.73
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.91
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.36
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.