Gene detail

Detailed information of OS493_035051-T1 in Lophelia pertusa

Genomic Location: scaffold_307:279610...289935
NR annotation: KAJ7388904.1, putative phospholipase [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
Q6PB03	5'-3' exonuclease PLD3 OS=Xenopus laevis OX=8355 GN=pld3 PE=2 SV=1
Q640B3	5'-3' exonuclease PLD3 OS=Xenopus tropicalis OX=8364 GN=pld3 PE=2 SV=1
O35405	5'-3' exonuclease PLD3 OS=Mus musculus OX=10090 GN=Pld3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006732 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00614 all species →	PLDc	Phospholipase D Active site motif	Family	Interproscan
PF13918 all species →	PLDc_3	PLD-like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001736 all species →	Domain	Phospholipase D/Transphosphatidylase	Interproscan
IPR050874 all species →	Family	Diverse function phospholipase D-related protein	Interproscan
IPR032803 all species →	Domain	PLD-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10185 all species →	PHOSPHOLIPASE D - RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	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
K16860	PLD3_4; phospholipase D3/4	EC:3.1.4.4	Membrane trafficking	ko04131	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_035051-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

34.3Max TPM

14.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.82	24.46
polyp at pH7 6	18	18	13.84	18.69
coral polyp · control treatment	16	16	16.60	25.83
coral polyp · oil and dispersant treatment	16	16	11.60	25.11
coral polyp · oil treatment	16	16	15.93	34.33
coral polyp · dispersant treatment	16	16	12.14	21.64
Polyp	10	10	13.22	21.50

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.46
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.39
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.25
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.53
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.69
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.53
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.62
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.14
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.78
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.63
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.17
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.58
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.71
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.69
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.26
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.39
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.39
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.57
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.69
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.67
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.05
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.01
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.60
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.56
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.38
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.70
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.64
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.31
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.98
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.49
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.15
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.40
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.70
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.43
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.93
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.83
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.91
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.51
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.30
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.86
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.36
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.20
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.54
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.85
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.39
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.22
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.24
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.73
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.06
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.13
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.11
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.84
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.46
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.28
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.28
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.82
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.19
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.70
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.87
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.37
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.04
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.45
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.32
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.94
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.44
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.33
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.48
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.19
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.28
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.10
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.65
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.14
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.90
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.53
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.36
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.18
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.99
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.80
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.87
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.24
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.77
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.64
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.63
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.48
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.24
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.03
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.95
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.50
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.78
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.14
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.19
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.18
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.18
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.52
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.91
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	21.50
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	19.96
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.54
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.70
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.98
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	12.77
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	11.44
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.18
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.79
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.29

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.