Gene detail

Detailed information of OS493_000095-T1 in Lophelia pertusa

Genomic Location: scaffold_1:1085184...1088142
NR annotation: KAJ7394293.1, hypothetical protein OS493_000095 [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
Q9HAS3	Solute carrier family 28 member 3 OS=Homo sapiens OX=9606 GN=SLC28A3 PE=1 SV=1
Q9ERH8	Solute carrier family 28 member 3 OS=Mus musculus OX=10090 GN=Slc28a3 PE=2 SV=1
Q8VIH3	Solute carrier family 28 member 3 OS=Rattus norvegicus OX=10116 GN=Slc28a3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001071 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07662 all species →	Nucleos_tra2_C	Na+ dependent nucleoside transporter C-terminus	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011657 all species →	Domain	Concentrative nucleoside transporter C-terminal domain	Interproscan
IPR008276 all species →	Family	Concentrative nucleoside transporter	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10590 all species →	SODIUM/NUCLEOSIDE COTRANSPORTER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005337 all species →	Molecular Function	nucleoside transmembrane transporter activity	Interproscan
GO:0005415 all species →	Molecular Function	nucleoside:sodium symporter activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0015293 all species →	Molecular Function	symporter activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:1901642 all species →	Biological Process	nucleoside transmembrane transport	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_000095-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_000095-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

106TPM > 0

7Conditions

26.9Max TPM

9.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	8.62	13.48
polyp at pH7 6	18	17	11.07	20.00
coral polyp · control treatment	16	16	13.15	26.65
coral polyp · oil and dispersant treatment	16	16	8.65	19.22
coral polyp · oil treatment	16	16	9.52	26.14
coral polyp · dispersant treatment	16	15	7.47	24.06
Polyp	10	9	9.35	26.88

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.48
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.41
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.59
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.01
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.73
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.44
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.34
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.15
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.08
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.42
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.10
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.08
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.71
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.71
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.26
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.92
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.74
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.03
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.40
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.52
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.11
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.91
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.41
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.15
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.14
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.81
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.92
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.83
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.71
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.04
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.47
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.65
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.56
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.56
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.41
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.20
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.11
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.20
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.05
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.90
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.52
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.72
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.46
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.36
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.97
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.89
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.22
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.35
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.64
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.73
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.56
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.30
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.73
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.13
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.06
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.29
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.93
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.81
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.39
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.74
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.65
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.14
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.95
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.40
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.13
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.61
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.19
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.90
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.92
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.45
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.54
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.99
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.53
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.39
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.72
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.06
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.86
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.26
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.78
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.62
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.88
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.85
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.61
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.23
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.43
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.60
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.22
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.89
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.78
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.42
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.88
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	20.14
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.07
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.52
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.14
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.99
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.73
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.90
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.10
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.