Gene detail

Detailed information of OS493_034772-T1 in Lophelia pertusa

Genomic Location: scaffold_299:44207...54805
NR annotation: KAJ7351868.1, E3 ubiquitin-protein ligase arih2 [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
Q9Z1K6	E3 ubiquitin-protein ligase ARIH2 OS=Mus musculus OX=10090 GN=Arih2 PE=1 SV=1
O76924	Potential E3 ubiquitin-protein ligase ariadne-2 OS=Drosophila melanogaster OX=7227 GN=ari-2 PE=1 SV=1
O95376	E3 ubiquitin-protein ligase ARIH2 OS=Homo sapiens OX=9606 GN=ARIH2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002376 (this species only) · gene tree & orthology
Ubiquitin family	E3\|E3 activity\|RBR · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF19422 all species →	Ariadne	Ariadne domain	Domain	Interproscan
PF01485 all species →	IBR	IBR domain, a half 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
IPR044066 all species →	Domain	TRIAD supradomain	Interproscan
IPR045840 all species →	Domain	Ariadne domain	Interproscan
IPR047556 all species →	Domain	E3 ubiquitin-protein ligase TRIAD1, Rcat domain	Interproscan
IPR002867 all species →	Domain	IBR domain	Interproscan
IPR031127 all species →	Family	E3 ubiquitin ligase RBR family	Interproscan
IPR047555 all species →	Domain	E3 ubiquitin-protein ligase ARIH2, BRcat domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11685 all species →	RBR FAMILY RING FINGER AND IBR DOMAIN-CONTAINING	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0000151 all species →	Cellular Component	ubiquitin ligase complex	Interproscan
GO:0000209 all species →	Biological Process	protein polyubiquitination	Interproscan
GO:0004842 all species →	Molecular Function	ubiquitin-protein transferase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006511 all species →	Biological Process	ubiquitin-dependent protein catabolic process	Interproscan
GO:0016567 all species →	Biological Process	protein ubiquitination	Interproscan
GO:0031624 all species →	Molecular Function	ubiquitin conjugating enzyme binding	Interproscan
GO:0032436 all species →	Biological Process	positive regulation of proteasomal 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K11969	ARIH2; ariadne-2	EC:2.3.2.31	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_034772-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

57.5Max TPM

34.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	31.38	52.05
polyp at pH7 6	18	18	30.34	38.67
coral polyp · control treatment	16	16	35.06	42.34
coral polyp · oil and dispersant treatment	16	16	42.74	57.53
coral polyp · oil treatment	16	16	33.39	49.76
coral polyp · dispersant treatment	16	16	34.07	53.12
Polyp	10	10	33.27	47.80

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.05
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.29
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.63
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.05
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.92
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.39
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.05
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.03
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.45
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.75
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.57
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.28
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.28
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.23
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.51
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.89
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.43
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.67
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.93
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.48
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.58
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.15
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.01
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.82
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.07
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.96
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.53
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.97
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.67
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.33
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.43
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.72
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.96
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.95
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.85
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.34
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.99
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.00
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.05
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.78
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.91
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.92
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.51
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.44
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.33
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.99
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.97
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.47
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.58
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.86
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.77
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.53
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.40
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.09
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.77
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.67
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.53
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.80
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.68
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.47
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.58
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.57
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.65
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.02
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.50
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.01
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.64
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.76
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.25
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.22
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.87
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.64
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.62
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.56
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.07
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.52
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.47
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.35
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.07
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.54
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.94
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.04
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.39
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.12
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.26
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.75
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.48
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.46
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.16
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.37
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.32
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.53
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.60
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.52
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.45
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.13
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.86
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.89
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.18
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	47.80
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	45.86
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	40.32
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	38.17
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	37.17
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	33.98
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	29.44
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	27.68
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	22.01
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	10.31

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.