Gene detail

Detailed information of OS493_018087-T1 in Lophelia pertusa

Genomic Location: scaffold_59:342225...342677
NR annotation: KAJ7360103.1, hypothetical protein OS493_018087 [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
P32320	Cytidine deaminase OS=Homo sapiens OX=9606 GN=CDA PE=1 SV=2
P56389	Cytidine deaminase OS=Mus musculus OX=10090 GN=Cda PE=1 SV=2
Q54I82	Probable cytidine deaminase OS=Dictyostelium discoideum OX=44689 GN=cda PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007505 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00383 all species →	dCMP_cyt_deam_1	Cytidine and deoxycytidylate deaminase zinc-binding region	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR050202 all species →	Family	Cytidine and Deoxycytidylate Deaminase	Interproscan
IPR006262 all species →	Family	Cytidine deaminase, homotetrameric	Interproscan
IPR002125 all species →	Domain	Cytidine and deoxycytidylate deaminase domain	Interproscan
IPR016193 all species →	Homologous_superfamily	Cytidine deaminase-like	Interproscan
IPR016192 all species →	Binding_site	APOBEC/CMP deaminase, zinc-binding	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11644 all species →	CYTIDINE DEAMINASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004126 all species →	Molecular Function	cytidine deaminase activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0009972 all species →	Biological Process	cytidine deamination	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0016787 all species →	Molecular Function	hydrolase activity	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K01489	cdd, CDA; cytidine deaminase	EC:3.5.4.5	Drug metabolism - other enzymes	ko00983	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_018087-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

110TPM > 0

7Conditions

29.2Max TPM

13.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.51	13.86
polyp at pH7 6	18	18	10.28	21.15
coral polyp · control treatment	16	16	17.82	29.16
coral polyp · oil and dispersant treatment	16	16	14.65	27.85
coral polyp · oil treatment	16	16	13.48	22.20
coral polyp · dispersant treatment	16	16	14.73	29.06
Polyp	10	10	10.56	13.52

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.86
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.59
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.91
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.82
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.64
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.55
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.32
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.07
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.67
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.65
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.62
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.29
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.04
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.01
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.75
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.35
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.63
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.48
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.15
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.38
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.21
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.56
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.51
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.31
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.14
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.66
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.27
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.99
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.95
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.65
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.42
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.94
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.82
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.85
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.37
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.96
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.16
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.02
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.16
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.97
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.59
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.25
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.84
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.31
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.28
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.45
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.61
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.18
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.48
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.05
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.28
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.85
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.65
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.67
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.69
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.23
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.85
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.80
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.56
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.32
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.74
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.47
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.17
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.11
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.88
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.59
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.85
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.20
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.23
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.98
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.48
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.33
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.48
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.48
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.20
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.25
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.07
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.05
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.16
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.99
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.73
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.23
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.77
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.06
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.05
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.56
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.23
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.37
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.92
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.61
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.36
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.88
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.62
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.19
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.94
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.93
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.69
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.32
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.52
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.35
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	12.11
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.14
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.85
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	10.79
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.58
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.06
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.30
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.87

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.