Gene detail

Detailed information of OS493_018248-T1 in Lophelia pertusa

Genomic Location: scaffold_60:627226...629813
NR annotation: KAJ7333078.1, AMP deaminase 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
Q9DBT5	AMP deaminase 2 OS=Mus musculus OX=10090 GN=Ampd2 PE=1 SV=2
Q02356	AMP deaminase 2 OS=Rattus norvegicus OX=10116 GN=Ampd2 PE=1 SV=2
Q01433	AMP deaminase 2 OS=Homo sapiens OX=9606 GN=AMPD2 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002773 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF19326 all species →	AMP_deaminase	AMP deaminase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006329 all species →	Family	AMP deaminase	Interproscan
IPR032466 all species →	Homologous_superfamily	Metal-dependent hydrolase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11359 all species →	AMP DEAMINASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003876 all species →	Molecular Function	AMP deaminase activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006188 all species →	Biological Process	IMP biosynthetic process	Interproscan
GO:0032264 all species →	Biological Process	IMP salvage	Interproscan
GO:0046033 all species →	Biological Process	AMP metabolic process	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_018248-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_018248-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

31.9Max TPM

15.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.46	21.43
polyp at pH7 6	18	17	12.11	20.36
coral polyp · control treatment	16	16	19.38	26.78
coral polyp · oil and dispersant treatment	16	16	16.97	27.71
coral polyp · oil treatment	16	16	16.56	24.46
coral polyp · dispersant treatment	16	16	19.22	31.91
Polyp	10	9	7.93	15.84

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	-	21.43
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.73
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.79
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.10
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.87
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.25
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.00
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.73
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.96
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.44
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.14
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.12
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.92
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.79
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.40
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.28
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.26
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.09
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.36
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.38
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.27
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.64
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.30
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.35
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.03
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.61
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.54
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.88
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.74
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.21
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.44
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.19
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.24
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.10
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.78
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.58
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.31
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.29
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.21
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.44
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.12
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.84
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.80
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.78
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.55
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.58
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.21
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.71
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.20
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.71
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.83
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.99
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.07
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.66
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.12
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.41
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.98
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.84
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.57
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.31
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.42
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.08
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.56
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.88
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.08
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.46
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.79
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.20
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.03
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.66
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.88
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.87
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.54
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.27
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.74
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.68
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.95
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.81
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.71
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.85
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.52
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.91
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.24
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.53
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.63
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.43
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.41
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.61
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.47
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.77
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.26
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.99
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.73
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.75
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.95
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.38
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.84
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.92
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.37
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.31
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.72
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.84
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.58
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.07
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.69
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.