Gene detail

Detailed information of OS493_038803-T1 in Lophelia pertusa

Genomic Location: scaffold_730:781...4152
NR annotation: KAJ7369457.1, C-1-tetrahydrofolate synthase, cytoplasmic [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
Q922D8	C-1-tetrahydrofolate synthase, cytoplasmic OS=Mus musculus OX=10090 GN=Mthfd1 PE=1 SV=4
Q5R8P0	C-1-tetrahydrofolate synthase, cytoplasmic OS=Pongo abelii OX=9601 GN=MTHFD1 PE=2 SV=3
P27653	C-1-tetrahydrofolate synthase, cytoplasmic OS=Rattus norvegicus OX=10116 GN=Mthfd1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001676 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02882 all species →	THF_DHG_CYH_C	Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR020631 all species →	Domain	Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR000672 all species →	Family	Tetrahydrofolate dehydrogenase/cyclohydrolase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR48099 all species →	C-1-TETRAHYDROFOLATE SYNTHASE, CYTOPLASMIC-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004488 all species →	Molecular Function	methylenetetrahydrofolate dehydrogenase (NADP+) activity	Interproscan
GO:0004477 all species →	Molecular Function	methenyltetrahydrofolate cyclohydrolase activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0035999 all species →	Biological Process	tetrahydrofolate interconversion	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_038803-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_038803-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

69TPM > 0

7Conditions

39.7Max TPM

7.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	7	5.77	20.99
polyp at pH7 6	18	5	4.36	17.43
coral polyp · control treatment	16	11	8.88	31.73
coral polyp · oil and dispersant treatment	16	14	9.17	39.70
coral polyp · oil treatment	16	12	9.03	32.87
coral polyp · dispersant treatment	16	12	7.21	28.98
Polyp	10	8	6.21	14.27

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.99
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.16
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.30
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.81
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.35
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.88
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.39
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	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
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.43
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.04
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.02
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.94
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.99
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
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
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.73
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.46
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.35
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.09
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.52
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.41
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.00
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.95
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.02
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.14
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.70
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.06
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.43
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.52
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.69
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.08
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.34
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.13
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.01
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.82
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.34
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.06
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.01
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.60
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.87
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.03
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.44
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.06
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.05
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.51
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.54
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.63
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.40
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.51
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.36
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.07
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.98
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.09
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.79
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.72
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.47
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.76
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.67
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.66
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.26
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.97
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.84
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.10
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.27
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	13.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.01
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.67
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.82
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.86
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.71
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.02
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.