Gene detail

Detailed information of OS493_009829-T1 in Lophelia pertusa

Genomic Location: scaffold_23:3087420...3088768
NR annotation: KAJ7363667.1, apolipoprotein [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
O95236	Apolipoprotein L3 OS=Homo sapiens OX=9606 GN=APOL3 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008252 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05461 all species →	ApoL	Apolipoprotein L	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035992 all species →	Homologous_superfamily	Ricin B-like lectins	Interproscan
IPR008405 all species →	Family	Apolipoprotein L	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14096 all species →	APOLIPOPROTEIN L	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005576 all species →	Cellular Component	extracellular region	Interproscan
GO:0006869 all species →	Biological Process	lipid transport	Interproscan
GO:0008289 all species →	Molecular Function	lipid binding	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0042157 all species →	Biological Process	lipoprotein 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

No KEGG orthology assignment for OS493_009829-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_009829-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

102TPM > 0

7Conditions

11.4Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.19	11.41
polyp at pH7 6	18	13	2.34	7.80
coral polyp · control treatment	16	16	2.67	10.78
coral polyp · oil and dispersant treatment	16	16	1.86	6.95
coral polyp · oil treatment	16	15	2.03	7.16
coral polyp · dispersant treatment	16	15	1.50	7.00
Polyp	10	9	0.91	2.35

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.41
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.31
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.25
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.53
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.95
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.59
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.56
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.33
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.31
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.07
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.04
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.99
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.90
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.67
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.62
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.29
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.94
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.74
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.80
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.28
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.87
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.58
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.17
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.88
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.71
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.38
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.30
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.29
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.28
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.04
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.56
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.78
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.62
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.38
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.62
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.64
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.62
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.43
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.87
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.78
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.66
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.28
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.03
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.02
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.53
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.33
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.12
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.95
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.60
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.65
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.74
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.62
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.15
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.28
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.22
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.15
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.73
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.63
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.59
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.41
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.13
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.12
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.16
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.48
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.22
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.75
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.28
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.22
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.16
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.98
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.89
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.66
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.61
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.60
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.22
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.22
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.82
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.62
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.27
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.80
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.64
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.56
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.99
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.58
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.52
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.37
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.29
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.35
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.71
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.55
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.42
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.70
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.63
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.36
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.21
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.17
SRR7746667	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.