Gene detail

Detailed information of OS493_015545-T1 in Lophelia pertusa

Genomic Location: scaffold_47:381955...385844
NR annotation: KAJ7360444.1, E3 ubiquitin-protein ligase znrf2 [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
F1MM41	E3 ubiquitin-protein ligase ZNRF1 OS=Bos taurus OX=9913 GN=ZNRF1 PE=3 SV=2
Q8ND25	E3 ubiquitin-protein ligase ZNRF1 OS=Homo sapiens OX=9606 GN=ZNRF1 PE=1 SV=2
Q91V17	E3 ubiquitin-protein ligase ZNRF1 OS=Mus musculus OX=10090 GN=Znrf1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007331 (this species only) · gene tree & orthology
Ubiquitin family	E3\|E3 activity RING\|RING · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
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
IPR051878 all species →	Family	ZNRF ubiquitin-protein ligase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46661 all species →	E3 UBIQUITIN-PROTEIN LIGASE ZNRF1-LIKE PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0043161 all species →	Biological Process	proteasome-mediated ubiquitin-dependent protein catabolic process	Interproscan
GO:0043231 all species →	Cellular Component	intracellular membrane-bounded organelle	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase activity	Interproscan
GO:0070936 all species →	Biological Process	protein K48-linked ubiquitination	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
K10694	ZNRF1_2; E3 ubiquitin-protein ligase ZNRF1/2	EC:2.3.2.27	Ubiquitin system	ko04121	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_015545-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

123.2Max TPM

42.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	28.04	38.76
polyp at pH7 6	18	18	31.26	43.83
coral polyp · control treatment	16	16	56.74	123.24
coral polyp · oil and dispersant treatment	16	16	67.24	98.82
coral polyp · oil treatment	16	16	50.31	89.03
coral polyp · dispersant treatment	16	16	38.72	58.51
Polyp	10	10	24.00	47.01

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	-	38.76
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.47
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.25
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.23
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.27
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.71
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.95
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.06
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.96
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.46
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.29
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.62
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.15
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.79
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.20
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.47
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.33
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.83
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.47
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.56
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.25
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.88
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.27
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.52
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.99
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.63
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.87
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.04
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.55
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.66
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.83
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.54
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.39
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	123.24
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.83
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.24
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.17
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.70
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.74
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.39
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.39
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.18
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.53
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.43
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.21
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.77
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.34
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.90
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	98.82
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	91.53
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	83.43
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	81.94
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.14
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.09
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.62
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.04
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.28
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.73
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.08
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.83
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.78
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.82
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.38
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.40
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.03
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.77
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.61
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.45
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.30
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	67.75
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.91
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.53
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.05
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.89
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.26
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.48
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.88
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.92
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.21
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.51
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.42
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.54
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.07
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.95
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.68
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.34
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.81
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.88
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.87
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.47
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.70
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.23
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.01
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.42
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.59
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	47.01
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	39.48
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	27.85
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	23.94
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	22.48
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	17.95
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	17.26
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	16.28
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.15
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.61

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.