Gene detail

Detailed information of OS493_004197-T1 in Lophelia pertusa

Genomic Location: scaffold_8:3461880...3464151
NR annotation: KAJ7387223.1, Ran-specific GTPase-activating protein [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
P34022	Ran-specific GTPase-activating protein OS=Mus musculus OX=10090 GN=Ranbp1 PE=1 SV=2
P43487	Ran-specific GTPase-activating protein OS=Homo sapiens OX=9606 GN=RANBP1 PE=1 SV=1
Q3T0M7	Ran-specific GTPase-activating protein OS=Bos taurus OX=9913 GN=RANBP1 PE=2 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
IPR045256 all species →	Domain	Ran-specific GTPase-activating protein 1, Ran-binding domain	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:0006913 all species →	Biological Process	nucleocytoplasmic 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K15306	RANBP1; Ran-binding protein 1	-	Human T-cell leukemia virus 1 infection	ko05166	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_004197-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

243.4Max TPM

72.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	31.81	54.01
polyp at pH7 6	18	18	50.54	149.61
coral polyp · control treatment	16	16	78.64	203.72
coral polyp · oil and dispersant treatment	16	16	155.37	243.41
coral polyp · oil treatment	16	16	53.58	91.55
coral polyp · dispersant treatment	16	16	91.30	195.10
Polyp	10	10	37.03	95.09

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	-	54.01
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.87
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.53
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.72
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.12
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.71
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.99
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.32
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.20
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.38
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.04
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.35
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.51
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.04
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.23
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.52
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.72
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	149.61
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	116.13
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.72
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.83
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.89
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.92
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.29
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.82
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.50
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.12
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.49
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.80
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.65
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.44
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.83
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.79
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.57
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.41
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	203.72
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	168.37
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	137.99
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	95.40
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.71
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.46
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.36
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.94
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.90
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.40
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.44
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.34
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.17
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.52
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.97
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.47
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	243.41
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	225.63
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	223.89
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	221.47
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	209.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	208.04
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	193.82
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	172.61
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	141.67
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	133.16
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	109.38
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	104.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	90.27
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	75.26
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.07
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.88
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	91.55
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	88.74
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.93
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.12
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.26
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.07
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.50
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.74
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.12
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.17
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.98
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.47
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.85
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.65
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.07
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	195.10
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	149.34
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	139.97
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	135.20
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	121.11
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	101.51
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	98.30
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	93.41
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	81.36
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	79.43
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.60
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.63
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.69
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.45
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.68
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	95.09
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	49.80
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	49.74
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	47.05
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	32.61
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	30.13
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	26.32
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	17.02
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	12.86
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.69

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.