Gene detail

Detailed information of OS493_018921-T1 in Lophelia pertusa

Genomic Location: scaffold_64:176958...186553
NR annotation: KAJ7372418.1, Pleckstrin y domain-containing F member 2 [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
Q5ZLY5	Pleckstrin homology domain-containing family F member 2 OS=Gallus gallus OX=9031 GN=PLEKHF2 PE=2 SV=1
Q9H8W4	Pleckstrin homology domain-containing family F member 2 OS=Homo sapiens OX=9606 GN=PLEKHF2 PE=1 SV=1
Q91WB4	Pleckstrin homology domain-containing family F member 2 OS=Mus musculus OX=10090 GN=Plekhf2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007479 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01363 all species →	FYVE	FYVE zinc finger	Domain	Interproscan
PF00169 all species →	PH	PH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001849 all species →	Domain	Pleckstrin homology domain	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR037871 all species →	Domain	Phafin, PH domain	Interproscan
IPR000306 all species →	Domain	FYVE zinc finger	Interproscan
IPR051765 all species →	Family	Pleckstrin homology domain-containing family F	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR017455 all species →	Domain	Zinc finger, FYVE-related	Interproscan
IPR011011 all species →	Homologous_superfamily	Zinc finger, FYVE/PHD-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46280 all species →	PLECKSTRIN HOMOLOGY DOMAIN-CONTAINING FAMILY F MEMBER 2-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0005769 all species →	Cellular Component	early endosome	Interproscan
GO:0007032 all species →	Biological Process	endosome organization	Interproscan
GO:0008333 all species →	Biological Process	endosome to lysosome transport	Interproscan
GO:0035091 all species →	Molecular Function	phosphatidylinositol binding	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
K23858	PLEKHF; pleckstrin homology domain-containing family F	-	Domain-containing proteins not elsewhere classified	ko04990	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_018921-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

77.3Max TPM

44.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	41.38	54.70
polyp at pH7 6	18	18	41.26	52.41
coral polyp · control treatment	16	16	51.48	77.28
coral polyp · oil and dispersant treatment	16	16	51.26	72.68
coral polyp · oil treatment	16	16	46.39	64.62
coral polyp · dispersant treatment	16	16	39.98	64.62
Polyp	10	10	32.89	46.66

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.70
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.93
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.56
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.38
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.90
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.62
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.01
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.82
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.28
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.70
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.53
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.78
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.83
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.70
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.82
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.56
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.86
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.82
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.41
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.74
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.45
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.08
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.16
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.96
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.52
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.22
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.89
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.56
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.73
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.98
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.92
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.38
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.49
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.76
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.48
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.04
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.28
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.52
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.07
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.26
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.03
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.67
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.34
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.52
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.79
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.19
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.69
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.43
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.84
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.95
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.02
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.68
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.74
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.39
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.74
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.20
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.74
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.44
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.22
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.19
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.89
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.05
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.10
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.92
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.68
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.83
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.34
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.62
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.43
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.99
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.92
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.89
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.86
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.85
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.81
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.23
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.68
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.73
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.66
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.86
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.84
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.41
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.53
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.62
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.34
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.55
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.37
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.91
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.61
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.71
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.86
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.33
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.65
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.77
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.11
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.51
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.19
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.05
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.05
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	46.66
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	39.81
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	39.10
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	38.13
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	36.62
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	36.13
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	25.31
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	24.83
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	21.37
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	20.88

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.