Gene detail

Detailed information of OS493_000094-T1 in Lophelia pertusa

Genomic Location: scaffold_1:1082101...1085172
NR annotation: KAJ7394292.1, hypothetical protein OS493_000094 [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
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
Q9UA35	Solute carrier family 28 member 3 OS=Eptatretus stoutii OX=7765 GN=SLC28A3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0062042 (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_000094-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_000094-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

30.6Max TPM

6.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	5.81	13.90
polyp at pH7 6	18	17	6.22	11.05
coral polyp · control treatment	16	16	9.96	30.56
coral polyp · oil and dispersant treatment	16	16	6.73	17.95
coral polyp · oil treatment	16	16	7.29	19.77
coral polyp · dispersant treatment	16	15	5.82	15.68
Polyp	10	9	5.84	19.19

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	-	13.90
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.01
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.55
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.67
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.56
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.93
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.80
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.28
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.22
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.34
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.59
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.58
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.30
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.65
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.68
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.32
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.05
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.04
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.97
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.33
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.40
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.34
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.26
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.39
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.31
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.56
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.20
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.95
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.24
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.16
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.12
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.11
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.44
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.56
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.32
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.07
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.88
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.82
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.76
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.22
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.20
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.04
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.01
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.66
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.40
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.34
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.97
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.82
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.30
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.95
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.73
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.46
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.97
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.44
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.17
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.73
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.52
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.33
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.88
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.53
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.39
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.83
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.99
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.97
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.83
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.77
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.64
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.69
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.58
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.68
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.38
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.90
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.20
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.13
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.70
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.97
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.58
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.30
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.18
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.03
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.68
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.51
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.68
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.77
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.41
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.65
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.45
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.12
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.86
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.76
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.41
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.70
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.85
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.45
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.85
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	19.19
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	8.56
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.04
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.02
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.69
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.49
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.08
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.96
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.33
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.