Gene detail

Detailed information of OS493_014010-T1 in Lophelia pertusa

Genomic Location: scaffold_39:769618...770433
NR annotation: KAJ7379615.1, hypothetical protein OS493_014010 [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
O43246	Cationic amino acid transporter 4 OS=Homo sapiens OX=9606 GN=SLC7A4 PE=1 SV=3
Q8BLQ7	Cationic amino acid transporter 4 OS=Mus musculus OX=10090 GN=Slc7a4 PE=1 SV=1
P30825	High affinity cationic amino acid transporter 1 OS=Homo sapiens OX=9606 GN=SLC7A1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000351 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13520 all species →	AA_permease_2	Amino acid permease	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002293 all species →	Family	Amino acid/polyamine transporter I	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43243 all species →	INNER MEMBRANE TRANSPORTER YGJI-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0022857 all species →	Molecular Function	transmembrane transporter activity	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	Interproscan
GO:0000064 all species →	Molecular Function	L-ornithine transmembrane transporter activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0006865 all species →	Biological Process	amino acid transport	Interproscan
GO:0015171 all species →	Molecular Function	amino acid transmembrane transporter activity	Interproscan
GO:0015181 all species →	Molecular Function	L-arginine transmembrane transporter activity	Interproscan
GO:0015189 all species →	Molecular Function	L-lysine transmembrane transporter activity	Interproscan
GO:0097638 all species →	Biological Process	L-arginine import across plasma membrane	Interproscan
GO:1903352 all species →	Biological Process	L-ornithine 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_014010-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_014010-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

107TPM > 0

7Conditions

6.7Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.83	6.59
polyp at pH7 6	18	18	2.31	5.47
coral polyp · control treatment	16	16	2.69	5.03
coral polyp · oil and dispersant treatment	16	15	1.75	4.83
coral polyp · oil treatment	16	16	2.32	4.12
coral polyp · dispersant treatment	16	16	2.74	6.69
Polyp	10	8	1.24	2.94

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.59
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.40
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.37
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.61
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.32
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.65
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.48
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.98
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.95
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.95
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.80
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.66
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.62
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.26
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.04
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.79
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.64
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.47
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.26
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.65
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.48
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.37
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.27
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.64
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.66
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.31
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.28
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.10
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.06
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.95
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.88
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.82
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.71
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.71
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.03
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.67
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.11
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.71
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.68
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.09
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.88
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.25
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.18
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.62
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.60
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.57
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.50
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.40
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.28
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.83
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.56
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.29
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.98
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.89
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.77
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.77
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.72
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.72
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.53
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.40
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.29
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.15
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.14
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.93
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.12
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.47
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.22
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.98
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.90
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.87
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.77
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.63
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.01
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.95
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.82
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.42
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.39
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.38
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.17
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.69
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.68
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.64
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.04
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.85
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.19
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.98
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.78
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.63
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.80
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.75
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.31
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.69
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.33
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.94
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.49
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.21
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.88
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.56
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.63
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.61
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.08
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.