Gene detail

Detailed information of OS493_003639-T1 in Lophelia pertusa

Genomic Location: scaffold_7:4016745...4020828
NR annotation: KAJ7393968.1, hypothetical protein OS493_003639 [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
P00378	Dihydrofolate reductase OS=Gallus gallus OX=9031 GN=DHFR PE=1 SV=1
P00377	Dihydrofolate reductase OS=Sus scrofa OX=9823 GN=DHFR PE=1 SV=1
P00376	Dihydrofolate reductase OS=Bos taurus OX=9913 GN=DHFR PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002484 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00186 all species →	DHFR_1	Dihydrofolate reductase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017925 all species →	Conserved_site	Dihydrofolate reductase conserved site	Interproscan
IPR012259 all species →	Family	Dihydrofolate reductase	Interproscan
IPR001796 all species →	Domain	Dihydrofolate reductase domain	Interproscan
IPR024072 all species →	Homologous_superfamily	Dihydrofolate reductase-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR48069 all species →	DIHYDROFOLATE REDUCTASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004146 all species →	Molecular Function	dihydrofolate reductase activity	Interproscan
GO:0046654 all species →	Biological Process	tetrahydrofolate biosynthetic process	Interproscan
GO:0050661 all species →	Molecular Function	NADP binding	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0046452 all species →	Biological Process	dihydrofolate metabolic process	Interproscan
GO:0046655 all species →	Biological Process	folic acid metabolic 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K00287	DHFR, folA; dihydrofolate reductase	EC:1.5.1.3	Antifolate resistance	ko01523	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_003639-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

90.9Max TPM

36.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	34.43	42.01
polyp at pH7 6	18	18	41.70	65.68
coral polyp · control treatment	16	16	36.56	62.12
coral polyp · oil and dispersant treatment	16	16	27.72	57.91
coral polyp · oil treatment	16	16	35.87	72.56
coral polyp · dispersant treatment	16	16	36.77	90.91
Polyp	10	10	41.03	62.64

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.01
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.41
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.21
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.89
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.53
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.28
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.86
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.60
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.17
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.36
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.56
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.49
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.14
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.96
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.58
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.47
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.40
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.84
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.68
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.54
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.37
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.16
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.94
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.31
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.12
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.57
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.23
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.05
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.40
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.82
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.31
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.86
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.59
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.54
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.51
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.12
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.15
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.18
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.14
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.88
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.01
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.98
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.91
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.30
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.47
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.55
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.47
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.45
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.18
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.94
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.91
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.40
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.19
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.89
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.34
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.60
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.20
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.99
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.36
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.18
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.97
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.50
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.33
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.84
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.02
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.56
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.18
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.62
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.60
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.52
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.67
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.61
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.29
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.39
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.88
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.78
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.49
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.43
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.49
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.50
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.89
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	90.91
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.16
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.51
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.08
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.77
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.92
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.32
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.23
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.09
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.71
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.60
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.47
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.96
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.91
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.69
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	62.64
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	54.95
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	52.20
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	45.21
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	44.78
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	42.50
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	42.33
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	29.23
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	19.26
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	17.18

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.