Gene detail

Detailed information of OS493_026581-T1 in Lophelia pertusa

Genomic Location: scaffold_138:260735...268656
NR annotation: KAJ7327703.1, hypothetical protein OS493_026581 [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
Q86XS8	E3 ubiquitin-protein ligase RNF130 OS=Homo sapiens OX=9606 GN=RNF130 PE=1 SV=1
Q566M8	RING finger protein 150 OS=Danio rerio OX=7955 GN=rnf150 PE=2 SV=1
Q8VEM1	E3 ubiquitin-protein ligase RNF130 OS=Mus musculus OX=10090 GN=Rnf130 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007045 (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
PF02225 all species →	PA	PA domain	Family	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
IPR003137 all species →	Domain	PA domain	Interproscan
IPR046450 all species →	Homologous_superfamily	PA domain superfamily	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46539 all species →	E3 UBIQUITIN-PROTEIN LIGASE ATL42	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_026581-T1. This gene does have a gene model — the search simply returned no hit.

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_026581-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_026581-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

278.9Max TPM

61.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	29.55	40.72
polyp at pH7 6	18	18	31.60	43.44
coral polyp · control treatment	16	16	67.15	189.54
coral polyp · oil and dispersant treatment	16	16	121.95	221.64
coral polyp · oil treatment	16	16	52.67	73.56
coral polyp · dispersant treatment	16	16	101.40	278.92
Polyp	10	10	21.19	43.30

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.72
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.68
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.25
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.90
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.29
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.99
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.45
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.29
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.27
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.21
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.76
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.06
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.29
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.09
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.75
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.21
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.37
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.24
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.44
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.99
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.61
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.39
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.32
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.93
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.26
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.70
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.42
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.35
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.41
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.37
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.47
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.18
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.71
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.78
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.88
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.57
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	189.54
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	98.61
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.32
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.69
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.74
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.46
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.42
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.90
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.20
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.30
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.66
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.13
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.53
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.17
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.79
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	221.64
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	220.12
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	168.34
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	157.60
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	156.16
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	149.99
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	126.22
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	120.93
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	119.68
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	107.86
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	92.73
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.62
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.84
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.68
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.67
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.07
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.56
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.24
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.93
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.49
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.52
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.13
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.89
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.85
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.16
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.79
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.66
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.03
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.36
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.73
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.01
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.40
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	278.92
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	185.47
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	154.37
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	153.17
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	110.83
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	107.73
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	101.10
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	96.43
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	88.75
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	85.99
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	79.57
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.35
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.19
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.56
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.57
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.46
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	43.30
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	32.08
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	26.19
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	22.04
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	16.73
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	16.63
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.36
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	10.11
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.42

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.