Gene detail

Detailed information of OS493_034712-T1 in Lophelia pertusa

Genomic Location: scaffold_297:328545...330865
NR annotation: KAJ7376435.1, hypothetical protein OS493_034712 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005807 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00909 all species →	Ammonium_transp	Ammonium Transporter Family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001905 all species →	Family	Ammonium transporter	Interproscan
IPR029020 all species →	Homologous_superfamily	Ammonium/urea transporter	Interproscan
IPR024041 all species →	Domain	Ammonium transporter AmtB-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43029 all species →	AMMONIUM TRANSPORTER MEP2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0008519 all species →	Molecular Function	ammonium channel activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0072488 all species →	Biological Process	ammonium 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_034712-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_034712-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

90TPM > 0

7Conditions

8.4Max TPM

2.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	14	2.21	6.19
polyp at pH7 6	18	13	2.25	4.88
coral polyp · control treatment	16	16	2.43	6.45
coral polyp · oil and dispersant treatment	16	11	1.48	6.35
coral polyp · oil treatment	16	15	3.09	8.36
coral polyp · dispersant treatment	16	15	2.01	4.21
Polyp	10	6	0.94	2.73

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	-	6.19
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.47
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.84
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.48
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.87
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.63
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.54
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.52
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.41
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.33
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.32
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.78
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.51
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.92
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.88
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.73
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.48
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.14
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.73
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.49
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.45
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.35
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.87
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.05
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.63
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.23
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.55
SRR11359501	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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.45
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.25
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.88
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.98
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.97
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.60
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.27
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.97
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.88
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.26
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.25
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.23
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.67
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.38
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.35
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.92
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.83
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.12
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.71
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.55
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.42
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.97
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.68
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.64
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.44
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.36
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.85
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.05
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.01
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.91
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.44
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.80
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.61
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.02
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.01
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.51
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.12
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.37
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.21
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.57
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.56
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.16
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.83
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.66
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.31
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.16
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.11
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.61
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.46
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.40
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.47
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.31
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.30
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.73
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.87
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.67
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.62
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.26
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.23
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	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.