Gene detail

Detailed information of OS493_023036-T1 in Lophelia pertusa

Genomic Location: scaffold_99:1152104...1154866
NR annotation: KAJ7378500.1, hypothetical protein OS493_023036 [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
Q9WU20	Methylenetetrahydrofolate reductase (NADPH) OS=Mus musculus OX=10090 GN=Mthfr PE=1 SV=2
P42898	Methylenetetrahydrofolate reductase (NADPH) OS=Homo sapiens OX=9606 GN=MTHFR PE=1 SV=3
Q5I598	Methylenetetrahydrofolate reductase (NADPH) OS=Bos taurus OX=9913 GN=MTHFR PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001885 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_023036-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

No InterPro signature was detected for OS493_023036-T1. This gene does have a gene model — the search simply returned no hit.

PANTHER

PANTHER term	Description	Source
PTHR45754 all species →	METHYLENETETRAHYDROFOLATE REDUCTASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004489 all species →	Molecular Function	methylenetetrahydrofolate reductase (NAD(P)H) activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0009086 all species →	Biological Process	methionine biosynthetic process	Interproscan
GO:0035999 all species →	Biological Process	tetrahydrofolate interconversion	Interproscan
GO:0071949 all species →	Molecular Function	FAD 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_023036-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_023036-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

48.7Max TPM

17.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	17.59	28.47
polyp at pH7 6	18	18	20.49	31.00
coral polyp · control treatment	16	16	22.34	48.69
coral polyp · oil and dispersant treatment	16	16	13.81	22.69
coral polyp · oil treatment	16	16	17.51	45.81
coral polyp · dispersant treatment	16	16	14.28	25.98
Polyp	10	10	10.20	21.59

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	-	28.47
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.27
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.30
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.83
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.31
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.48
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.71
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.66
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.55
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.16
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.99
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.51
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.53
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.87
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.69
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.61
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.51
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.44
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.23
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.01
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.22
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.07
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.99
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.82
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.23
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.81
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.16
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.59
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.70
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.85
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.11
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.47
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.69
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.76
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.03
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.07
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.57
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.99
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.80
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.07
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.74
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.79
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.62
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.39
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.93
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.54
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.81
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.71
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.69
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.93
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.85
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.62
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.52
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.67
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.53
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.30
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.57
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.16
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.55
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.64
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.97
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.42
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.60
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.81
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.46
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.15
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.71
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.84
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.80
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.35
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.59
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.46
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.99
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.65
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.58
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.88
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.37
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.11
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.44
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.98
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.29
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.18
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.36
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.25
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.65
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.11
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.60
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.59
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.60
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.33
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.77
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.62
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.21
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	21.59
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.71
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	12.69
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	12.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.74
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.68
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.20
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.29
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.62
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.34

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.