Gene detail

Detailed information of OS493_000803-T1 in Lophelia pertusa

Genomic Location: scaffold_2:373155...381132
NR annotation: KAJ7387473.1, hypothetical protein OS493_000803 [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
Q5SPX3	RING finger protein 215 OS=Mus musculus OX=10090 GN=Rnf215 PE=2 SV=1
Q9Y6U7	RING finger protein 215 OS=Homo sapiens OX=9606 GN=RNF215 PE=4 SV=2
Q5DTZ6	RING finger protein 150 OS=Mus musculus OX=10090 GN=Rnf150 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010485 (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
PF13639 all species →	zf-RING_2	Ring finger domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051073 all species →	Family	ZNRF3/Arkadia E3 ubiquitin-protein ligases	Interproscan
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	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_000803-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_000803-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

109TPM > 0

7Conditions

66.9Max TPM

13.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	24.16	66.87
polyp at pH7 6	18	18	23.66	65.36
coral polyp · control treatment	16	16	10.08	25.60
coral polyp · oil and dispersant treatment	16	16	5.75	18.40
coral polyp · oil treatment	16	16	10.11	16.00
coral polyp · dispersant treatment	16	16	4.73	9.04
Polyp	10	9	12.06	22.23

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	66.87
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.74
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.69
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.13
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.09
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.02
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.70
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.12
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.33
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.66
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.48
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.16
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.73
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.15
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.80
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.47
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.78
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.36
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.70
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.38
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.27
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.99
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.97
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.64
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.56
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.49
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.25
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.86
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.72
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.35
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.07
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.16
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.22
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.60
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.15
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.99
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.38
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.26
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.87
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.60
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.81
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.26
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.98
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.92
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.78
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.84
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.19
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.95
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.62
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.40
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.24
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.90
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.43
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.39
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.87
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.77
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.69
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.39
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.37
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.02
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.87
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.52
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.28
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.86
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.98
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.74
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.32
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.40
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.83
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.27
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.98
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.52
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.24
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.15
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.78
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.69
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.56
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.13
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.80
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.04
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.94
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.93
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.93
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.96
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.22
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.11
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.06
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.83
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.56
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.53
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.14
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.07
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.58
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.22
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	22.23
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	21.31
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	20.21
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	16.18
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	15.70
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.78
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.60
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.24
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.33
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.