Gene detail

Detailed information of OS493_023017-T1 in Lophelia pertusa

Genomic Location: scaffold_99:874196...875977
NR annotation: KAJ7378482.1, hypothetical protein OS493_023017 [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
O78472	Photosystem II assembly factor Ycf39 OS=Guillardia theta OX=55529 GN=ycf39 PE=3 SV=1
P51238	Photosystem II assembly factor Ycf39 OS=Porphyra purpurea OX=2787 GN=ycf39 PE=3 SV=1
Q1XDP9	Photosystem II assembly factor Ycf39 OS=Pyropia yezoensis OX=2788 GN=ycf39 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001414 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13460 all species →	NAD_binding_10	NAD(P)H-binding	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR051606 all species →	Family	Polyketide Oxidoreductase-like	Interproscan
IPR016040 all species →	Domain	NAD(P)-binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43355 all species →	FLAVIN REDUCTASE (NADPH)	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016646 all species →	Molecular Function	oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor	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_023017-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_023017-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

104TPM > 0

7Conditions

671.3Max TPM

56.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	2.11	4.65
polyp at pH7 6	18	16	1.94	5.92
coral polyp · control treatment	16	16	37.61	116.94
coral polyp · oil and dispersant treatment	16	16	141.69	515.17
coral polyp · oil treatment	16	16	20.44	83.13
coral polyp · dispersant treatment	16	16	177.98	671.29
Polyp	10	9	11.32	28.45

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.65
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.62
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.92
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.62
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.47
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.21
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.89
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.39
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.25
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.97
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.68
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.17
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.11
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.07
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	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
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.92
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.56
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.78
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.49
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.33
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.02
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.84
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.55
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.16
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.99
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.61
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.26
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.21
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.13
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.05
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
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	116.94
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	103.99
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.55
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.53
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.77
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.13
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.15
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.16
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.96
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.75
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.44
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.83
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.81
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.27
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.24
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.18
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	515.17
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	495.90
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	362.20
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	240.08
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	200.80
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	106.86
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.26
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.82
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.30
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.83
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.14
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.08
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.71
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.66
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.39
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.13
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.70
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.80
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.08
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.10
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.13
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.24
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.58
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.36
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.77
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.20
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.73
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.49
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.33
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.27
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.18
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	671.29
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	436.96
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	379.99
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	345.59
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	271.58
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	260.33
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	196.03
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	171.10
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.22
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.72
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.91
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.14
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.58
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.36
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.33
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	28.45
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	21.72
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.29
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.95
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	12.57
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	11.83
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.91
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.09
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.40
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.