Gene detail

Detailed information of OS493_010234-T1 in Lophelia pertusa

Genomic Location: scaffold_25:241299...242654
NR annotation: KAJ7392585.1, E3 SUMO-protein ligase RanBP2 [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
Q9ERU9	E3 SUMO-protein ligase RanBP2 OS=Mus musculus OX=10090 GN=Ranbp2 PE=1 SV=2
P49792	E3 SUMO-protein ligase RanBP2 OS=Homo sapiens OX=9606 GN=RANBP2 PE=1 SV=2
H2QII6	E3 SUMO-protein ligase RanBP2 OS=Pan troglodytes OX=9598 GN=RANBP2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003339 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00638 all species →	Ran_BP1	RanBP1 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000156 all species →	Domain	Ran binding domain	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR045255 all species →	Family	Ran binding protein RanBP1-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23138 all species →	RAN BINDING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046907 all species →	Biological Process	intracellular transport	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0005643 all species →	Cellular Component	nuclear pore	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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_010234-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_010234-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

76TPM > 0

7Conditions

7.9Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	11	2.53	7.56
polyp at pH7 6	18	12	2.45	7.46
coral polyp · control treatment	16	11	3.12	7.88
coral polyp · oil and dispersant treatment	16	10	2.18	6.08
coral polyp · oil treatment	16	12	1.87	4.76
coral polyp · dispersant treatment	16	11	2.22	4.83
Polyp	10	9	1.50	3.86

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.56
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.70
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.02
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.88
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.72
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.48
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.48
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.10
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.95
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.83
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.46
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.05
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.49
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.95
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.87
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.70
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.98
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.59
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.50
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.95
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.90
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.65
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.88
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.88
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.09
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.94
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.90
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.61
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.31
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.58
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.10
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.80
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.80
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.08
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.94
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.25
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.11
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.93
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.34
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.72
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.67
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.47
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.39
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.76
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.36
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.18
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.69
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.27
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.26
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.23
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.86
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.33
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.27
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.13
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.66
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.83
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.81
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.58
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.90
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.39
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.88
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.37
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.14
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.88
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.70
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.86
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.48
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.12
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.01
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.19
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.13
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.05
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.62
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.50
SRR23025713	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.