Gene detail

Detailed information of OS493_000801-T1 in Lophelia pertusa

Genomic Location: scaffold_2:349176...363135
NR annotation: KAJ7387472.1, E3 ubiquitin-protein ligase znrf3 [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
Q5SSZ7	E3 ubiquitin-protein ligase ZNRF3 OS=Mus musculus OX=10090 GN=Znrf3 PE=1 SV=1
Q9ULT6	E3 ubiquitin-protein ligase ZNRF3 OS=Homo sapiens OX=9606 GN=ZNRF3 PE=1 SV=3
Q08D68	E3 ubiquitin-protein ligase ZNRF3 OS=Xenopus tropicalis OX=8364 GN=znrf3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006902 (this species only)
Ubiquitin family	E3\|E3 activity RING\|RING · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18212 all species →	ZNRF_3_ecto	ZNRF-3 Ectodomain	Domain	Interproscan
PF13639 all species →	zf-RING_2	Ring finger domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR051073 all species →	Family	ZNRF3/Arkadia E3 ubiquitin-protein ligases	Interproscan
IPR040700 all species →	Domain	ZNRF-3, ectodomain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16200 all species →	RING ZINC FINGER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006511 all species →	Biological Process	ubiquitin-dependent protein catabolic process	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase 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

No KEGG orthology assignment for OS493_000801-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_000801-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

95.0Max TPM

26.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	24.34	33.95
polyp at pH7 6	18	18	29.70	55.18
coral polyp · control treatment	16	16	28.73	46.76
coral polyp · oil and dispersant treatment	16	16	18.96	29.23
coral polyp · oil treatment	16	16	26.49	38.94
coral polyp · dispersant treatment	16	16	23.26	51.81
Polyp	10	10	38.82	95.02

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	-	33.95
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.91
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.24
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.16
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.65
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.27
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.44
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.13
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.76
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.70
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.27
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.57
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.40
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.90
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.20
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.86
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.92
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.18
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.26
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.74
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.13
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.81
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.39
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.76
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.18
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.16
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.13
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.67
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.61
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.52
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.48
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.74
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.13
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.76
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.18
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.04
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.45
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.92
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.86
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.17
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.34
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.74
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.05
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.17
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.22
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.79
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.93
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.82
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.27
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.23
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.21
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.67
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.46
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.87
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.76
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.73
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.78
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.34
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.32
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.30
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.29
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.17
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.83
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.66
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.71
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.94
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.28
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.10
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.57
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.40
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.88
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.71
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.04
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.03
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.08
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.54
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.10
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.87
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.50
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.28
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.81
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.98
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.38
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.25
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.69
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.63
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.04
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.96
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.50
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.33
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.15
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.97
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.90
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.28
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.17
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	95.02
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	59.05
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	49.72
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	41.19
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	34.27
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	28.59
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	24.35
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	23.52
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	19.95
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	12.53

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.