Gene detail

Detailed information of OS493_003870-T1 in Lophelia pertusa

Genomic Location: scaffold_7:6635124...6639966
NR annotation: KAJ7394189.1, hypothetical protein OS493_003870 [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
Q969G6	Riboflavin kinase OS=Homo sapiens OX=9606 GN=RFK PE=1 SV=2
Q8CFV9	Riboflavin kinase OS=Mus musculus OX=10090 GN=Rfk PE=1 SV=2
O76206	Putative riboflavin kinase OS=Drosophila melanogaster OX=7227 GN=Rfk PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004054 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01687 all species →	Flavokinase	Riboflavin kinase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015865 all species →	Domain	Riboflavin kinase domain, bacterial/eukaryotic	Interproscan
IPR023465 all species →	Homologous_superfamily	Riboflavin kinase domain superfamily	Interproscan
IPR023468 all species →	Family	Riboflavin kinase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22749 all species →	RIBOFLAVIN KINASE/FMN ADENYLYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008531 all species →	Molecular Function	riboflavin kinase activity	Interproscan
GO:0009231 all species →	Biological Process	riboflavin biosynthetic process	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006771 all species →	Biological Process	riboflavin metabolic process	Interproscan
GO:0009398 all species →	Biological Process	FMN 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K00861	RFK, FMN1; riboflavin kinase	EC:2.7.1.26	Riboflavin metabolism	ko00740	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_003870-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

109TPM > 0

7Conditions

80.0Max TPM

18.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.33	22.71
polyp at pH7 6	18	17	11.76	18.16
coral polyp · control treatment	16	16	18.12	40.92
coral polyp · oil and dispersant treatment	16	16	22.61	41.85
coral polyp · oil treatment	16	16	15.40	30.79
coral polyp · dispersant treatment	16	16	35.45	80.02
Polyp	10	10	13.23	21.07

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	-	22.71
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.86
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.51
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.52
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.31
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.84
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.29
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.11
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.90
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.73
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.24
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.05
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.80
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.79
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.63
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.57
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.16
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.58
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.39
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.52
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.29
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.08
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.96
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.96
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.94
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.73
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.52
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.76
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.11
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.86
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.92
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.92
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.50
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.54
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.52
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.18
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.95
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.62
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.09
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.81
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.06
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.34
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.14
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.70
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.50
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.80
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.85
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.10
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.36
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.81
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.75
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.83
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.57
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.31
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.68
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.03
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.53
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.84
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.76
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.79
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.12
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.13
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.08
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.68
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.12
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.13
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.90
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.85
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.11
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.21
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.07
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.91
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.64
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.51
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.22
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.02
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.18
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.89
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.14
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.65
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.08
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.95
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.60
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.85
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.55
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.52
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.38
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.09
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.66
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.63
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	21.07
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	16.27
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	15.94
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.35
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.55
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	12.69
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	12.33
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	12.14
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.28
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.75

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.