Gene detail

Detailed information of OS493_018456-T1 in Lophelia pertusa

Genomic Location: scaffold_61:866346...873881
NR annotation: KAJ7391411.1, Trafficking protein particle complex subunit 3 [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
Q5ZI57	Trafficking protein particle complex subunit 3 OS=Gallus gallus OX=9031 GN=TRAPPC3 PE=2 SV=1
O55013	Trafficking protein particle complex subunit 3 OS=Mus musculus OX=10090 GN=Trappc3 PE=1 SV=1
Q5U1Z2	Trafficking protein particle complex subunit 3 OS=Rattus norvegicus OX=10116 GN=Trappc3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008196 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04051 all species →	TRAPP	Transport protein particle (TRAPP) component	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007194 all species →	Family	Transport protein particle (TRAPP) component	Interproscan
IPR024096 all species →	Homologous_superfamily	NO signalling/Golgi transport ligand-binding domain superfamily	Interproscan
IPR016721 all species →	Family	Bet3 family	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13048 all species →	TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT 3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0030008 all species →	Cellular Component	TRAPP complex	Interproscan
GO:0048193 all species →	Biological Process	Golgi vesicle transport	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006888 all species →	Biological Process	endoplasmic reticulum to Golgi vesicle-mediated transport	Interproscan
GO:0006891 all species →	Biological Process	intra-Golgi vesicle-mediated transport	Interproscan
GO:0033106 all species →	Cellular Component	cis-Golgi network membrane	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
K20302	TRAPPC3, BET3; trafficking protein particle complex subunit 3	-	Membrane trafficking	ko04131	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_018456-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

89.6Max TPM

20.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	16.23	30.26
polyp at pH7 6	18	18	17.03	25.97
coral polyp · control treatment	16	16	29.11	65.24
coral polyp · oil and dispersant treatment	16	16	28.78	89.56
coral polyp · oil treatment	16	16	21.30	40.82
coral polyp · dispersant treatment	16	16	15.64	37.32
Polyp	10	10	13.02	25.78

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	-	30.26
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.05
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.41
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.02
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.72
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.42
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.99
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.55
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.29
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.77
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.81
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.22
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.38
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.00
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.96
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.70
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.04
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.61
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.97
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.10
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.79
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.81
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.73
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.16
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.97
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.74
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.84
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.25
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.77
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.51
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.17
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.10
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.93
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.15
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.24
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.12
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.93
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.29
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.13
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.05
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.29
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.20
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.93
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.92
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.14
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.59
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.23
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.55
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.21
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.88
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	89.56
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.68
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.48
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.28
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.63
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.47
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.51
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.84
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.85
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.24
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.05
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.34
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.90
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.66
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.55
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.45
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.82
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.31
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.81
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.48
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.32
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.26
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.21
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.61
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.60
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.24
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.94
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.11
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.53
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.01
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.32
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.75
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.81
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.05
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.72
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.60
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.42
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.05
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.81
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.14
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.01
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.52
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.21
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.41
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.15
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	25.78
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	17.73
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	16.18
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.88
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.70
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.65
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.59
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.04
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.88
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.82

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.