Gene detail

Detailed information of OS493_004704-T1 in Lophelia pertusa

Genomic Location: scaffold_9:3670664...3675989
NR annotation: KAJ7381106.1, Ragulator complex protein lamtor3 [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
O88653	Ragulator complex protein LAMTOR3 OS=Mus musculus OX=10090 GN=Lamtor3 PE=1 SV=1
Q5U204	Ragulator complex protein LAMTOR3 OS=Rattus norvegicus OX=10116 GN=Lamtor3 PE=2 SV=1
Q7T0V2	Ragulator complex protein LAMTOR3-A OS=Xenopus laevis OX=8355 GN=lamtor3-a PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008420 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08923 all species →	MAPKK1_Int	Mitogen-activated protein kinase kinase 1 interacting	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015019 all species →	Family	Ragulator complex protein LAMTOR3	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13378 all species →	REGULATOR COMPLEX PROTEIN LAMTOR3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0032006 all species →	Biological Process	regulation of TOR signaling	Interproscan
GO:0032008 all species →	Biological Process	positive regulation of TOR signaling	Interproscan
GO:0071230 all species →	Biological Process	cellular response to amino acid stimulus	Interproscan
GO:0071986 all species →	Cellular Component	Ragulator complex	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
K04370	LAMTOR3, MP1, MAP2K1IP1; ragulator complex protein LAMTOR3	-	mTOR signaling pathway	ko04150	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_004704-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

108TPM > 0

7Conditions

90.2Max TPM

38.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	32.18	56.84
polyp at pH7 6	18	17	33.82	59.07
coral polyp · control treatment	16	16	46.27	76.56
coral polyp · oil and dispersant treatment	16	16	37.77	56.57
coral polyp · oil treatment	16	16	48.30	69.52
coral polyp · dispersant treatment	16	16	36.14	90.21
Polyp	10	9	36.78	73.34

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	-	56.84
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.36
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.67
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.37
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.05
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.73
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.40
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.28
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.38
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.59
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.52
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.29
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.05
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.50
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.54
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.82
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.80
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.07
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.48
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.04
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.76
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.51
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.89
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.72
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.83
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.58
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.01
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.88
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.17
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.24
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.74
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.56
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.56
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.53
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.02
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.64
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.37
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.11
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.42
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.55
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.05
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.33
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.57
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.20
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.07
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.91
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.57
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.43
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.59
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.72
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.38
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.28
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.77
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.52
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.87
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.04
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.13
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.57
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.62
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.25
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.44
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.03
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.51
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.73
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.57
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.61
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.11
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.11
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.09
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.05
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.07
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.54
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.77
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.66
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.10
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	90.21
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.23
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.98
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.13
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.75
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.20
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.92
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.97
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.57
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.93
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.86
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.93
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.67
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.62
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.55
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.68
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	73.34
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	46.78
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	45.24
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	42.84
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	40.49
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	34.65
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	33.53
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	30.74
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	20.21
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.