Gene detail

Detailed information of OS493_012778-T1 in Lophelia pertusa

Genomic Location: scaffold_33:2897004...2901804
NR annotation: KAJ7380016.1, Trafficking protein particle complex subunit 6B [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
F1QMV3	Trafficking protein particle complex subunit 6b OS=Danio rerio OX=7955 GN=trappc6b PE=2 SV=1
Q32L78	Trafficking protein particle complex subunit 6B OS=Bos taurus OX=9913 GN=TRAPPC6B PE=2 SV=1
Q86SZ2	Trafficking protein particle complex subunit 6B OS=Homo sapiens OX=9606 GN=TRAPPC6B PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008011 (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
IPR037992 all species →	Family	TRAPP complex, Trs33 subunit	Interproscan
IPR007194 all species →	Family	Transport protein particle (TRAPP) component	Interproscan
IPR024096 all species →	Homologous_superfamily	NO signalling/Golgi transport ligand-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12817 all species →	TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT 6B	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0043087 all species →	Biological Process	regulation of GTPase activity	Interproscan
GO:0048193 all species →	Biological Process	Golgi vesicle transport	Interproscan
GO:0005801 all species →	Cellular Component	cis-Golgi network	Interproscan
GO:0005802 all species →	Cellular Component	trans-Golgi network	Interproscan
GO:0006888 all species →	Biological Process	endoplasmic reticulum to Golgi vesicle-mediated transport	Interproscan
GO:0030008 all species →	Cellular Component	TRAPP 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
K20304	TRAPPC6, TRS33; trafficking protein particle complex subunit 6	-	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_012778-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

109TPM > 0

7Conditions

77.7Max TPM

14.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.85	19.13
polyp at pH7 6	18	17	12.31	21.88
coral polyp · control treatment	16	16	18.26	35.42
coral polyp · oil and dispersant treatment	16	16	12.66	23.44
coral polyp · oil treatment	16	16	15.22	19.72
coral polyp · dispersant treatment	16	16	10.74	23.20
Polyp	10	10	29.36	77.73

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.13
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.42
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.40
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.05
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.05
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.27
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.16
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.98
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.72
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.34
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.88
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.39
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.89
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.68
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.16
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.56
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.47
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.66
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.88
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.05
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.48
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.39
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.16
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.99
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.58
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.02
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.20
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.12
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.69
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.20
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.98
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.24
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.46
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.43
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.72
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.42
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.17
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.51
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.26
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.20
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.59
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.69
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.29
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.05
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.41
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.69
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.29
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.45
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.77
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.67
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.70
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.44
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.94
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.81
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.63
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.03
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.75
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.20
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.12
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.29
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.65
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.69
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.66
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.63
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.52
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.19
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.10
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.72
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.65
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.63
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.24
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.08
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.43
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.05
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.73
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.21
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.84
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.20
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.60
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.20
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.98
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.70
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.26
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.20
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.44
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.65
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.85
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.25
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.29
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.70
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.96
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.90
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.11
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.94
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.85
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.48
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.87
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.71
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.58
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	77.73
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	42.23
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	37.50
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	36.13
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	22.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	21.45
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.31
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.50
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	14.19
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	11.40

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.