Gene detail

Detailed information of OS493_036930-T1 in Lophelia pertusa

Genomic Location: scaffold_391:193857...196256
NR annotation: KAJ7388563.1, copper ion binding [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
Q8BZT9	Purine nucleoside phosphorylase LACC1 OS=Mus musculus OX=10090 GN=Lacc1 PE=1 SV=1
Q8IV20	Purine nucleoside phosphorylase LACC1 OS=Homo sapiens OX=9606 GN=LACC1 PE=1 SV=1
Q92HU9	Purine nucleoside phosphorylase RC0672 OS=Rickettsia conorii (strain ATCC VR-613 / Malish 7) OX=272944 GN=RC0672 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008378 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02578 all species →	Cu-oxidase_4	Multi-copper polyphenol oxidoreductase laccase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003730 all species →	Family	Multi-copper polyphenol oxidoreductase	Interproscan
IPR011324 all species →	Homologous_superfamily	Cytotoxic necrotizing factor-like, catalytic	Interproscan
IPR038371 all species →	Homologous_superfamily	Multi-copper polyphenol oxidoreductase superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR30616 all species →	UNCHARACTERIZED PROTEIN YFIH	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005507 all species →	Molecular Function	copper ion binding	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
K05810	LACC1, yfiH; purine-nucleoside/S-methyl-5'-thioadenosine phosphorylase / adenosine deaminase	EC:2.4.2.1 EC:2.4.2.28 EC:3.5.4.4	Cysteine and methionine metabolism	ko00270	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_036930-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

77.6Max TPM

40.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	49.53	65.77
polyp at pH7 6	18	18	46.37	58.71
coral polyp · control treatment	16	16	45.39	77.60
coral polyp · oil and dispersant treatment	16	16	30.75	54.34
coral polyp · oil treatment	16	16	36.13	59.32
coral polyp · dispersant treatment	16	16	31.09	53.96
Polyp	10	10	44.11	72.23

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.77
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.60
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.39
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.49
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.45
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.56
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.73
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.93
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.72
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.80
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.54
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.13
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.25
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.76
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.12
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.91
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.18
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.14
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.71
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.81
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.74
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.12
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.47
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.31
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.99
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.11
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.61
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.69
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.01
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.80
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.16
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.02
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.14
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.09
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.13
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.60
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.10
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.89
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.62
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.83
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.90
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.77
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.93
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.89
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.65
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.53
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.96
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.54
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.05
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.34
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.34
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.64
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.03
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.55
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.66
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.60
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.97
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.94
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.46
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.48
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.38
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.08
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.61
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.41
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.85
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.55
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.75
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.72
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.60
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.72
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.86
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.71
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.64
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.55
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.48
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.63
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.34
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.72
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.61
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.96
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.81
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.22
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.31
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.52
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.47
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.85
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.20
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.06
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.67
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.22
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.96
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.38
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.70
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.02
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	72.23
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	64.81
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	55.91
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	46.69
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	44.14
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	43.13
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	40.15
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	38.86
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	18.78
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	16.44

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.