Gene detail

Detailed information of OS493_004322-T1 in Lophelia pertusa

Genomic Location: scaffold_8:5055422...5062004
NR annotation: KAJ7387334.1, Protein spinster 3 [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
Q2YDU8	Protein spinster homolog 1 OS=Rattus norvegicus OX=10116 GN=Spns1 PE=2 SV=2
Q8R0G7	Protein spinster homolog 1 OS=Mus musculus OX=10090 GN=Spns1 PE=2 SV=1
Q08DX7	Protein spinster homolog 1 OS=Bos taurus OX=9913 GN=SPNS1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004280 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07690 all species →	MFS_1	Major Facilitator Superfamily	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011701 all species →	Family	Major facilitator superfamily	Interproscan
IPR044770 all species →	Family	Protein spinster-like	Interproscan
IPR036259 all species →	Homologous_superfamily	MFS transporter superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23505 all species →	SPINSTER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0022857 all species →	Molecular Function	transmembrane transporter activity	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	Interproscan
GO:0005215 all species →	Molecular Function	transporter activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	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
K23677	SPNS; MFS transporter, Spinster family, sphingosine-1-phosphate transporter	-	Transporters	ko02000	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_004322-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

108TPM > 0

7Conditions

26.2Max TPM

7.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.77	13.64
polyp at pH7 6	18	18	8.13	15.13
coral polyp · control treatment	16	16	10.03	24.70
coral polyp · oil and dispersant treatment	16	16	8.56	26.19
coral polyp · oil treatment	16	16	8.03	12.88
coral polyp · dispersant treatment	16	16	6.89	12.60
Polyp	10	8	2.69	6.53

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.64
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.04
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.43
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.22
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.16
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.06
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.83
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.29
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.28
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.14
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.14
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.01
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.89
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.68
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.82
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.63
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.32
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.32
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.13
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.22
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.12
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.59
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.85
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.84
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.42
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.32
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.25
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.88
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.73
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.43
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.13
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.40
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.30
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.88
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.50
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.70
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.08
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.97
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.28
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.56
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.35
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.32
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.27
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.76
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.38
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.54
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.42
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.81
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.55
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.71
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.79
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.19
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.57
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.56
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.31
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.93
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.44
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.38
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.61
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.20
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.41
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.20
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.05
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.79
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.02
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.43
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.85
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.88
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.80
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.76
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.65
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.44
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.83
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.68
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.73
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.48
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.14
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.29
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.01
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.93
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.21
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.63
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.99
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.60
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.50
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.10
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.52
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.33
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.29
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.01
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.70
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.85
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.23
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.75
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.62
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.18
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.87
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.55
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.15
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.53
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.93
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.91
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.31
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.51
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.50
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.93
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.33
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.