Gene detail

Detailed information of OS493_012781-T1 in Lophelia pertusa

Genomic Location: scaffold_33:2937402...2939111
NR annotation: KAJ7380019.1, 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
IPR024096 all species →	Homologous_superfamily	NO signalling/Golgi transport ligand-binding domain superfamily	Interproscan
IPR007194 all species →	Family	Transport protein particle (TRAPP) component	Interproscan
IPR037992 all species →	Family	TRAPP complex, Trs33 subunit	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

No KEGG orthology assignment for OS493_012781-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_012781-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

78TPM > 0

7Conditions

22.1Max TPM

5.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	3	1.19	10.86
polyp at pH7 6	18	10	6.02	22.09
coral polyp · control treatment	16	16	8.16	14.88
coral polyp · oil and dispersant treatment	16	14	4.94	9.96
coral polyp · oil treatment	16	16	6.77	11.00
coral polyp · dispersant treatment	16	13	4.04	11.83
Polyp	10	6	6.53	17.66

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.86
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.90
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.75
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	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
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	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
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359511	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
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.09
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.95
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.26
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.99
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.82
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.51
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.12
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.97
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.19
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.52
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359503	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
SRR11359524	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
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.88
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.28
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.43
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.20
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.64
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.70
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.04
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.97
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.27
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.18
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.82
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.59
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.92
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.80
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.10
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.70
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.96
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.86
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.70
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.23
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.44
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.83
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.78
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.18
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.76
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.04
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.91
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.76
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.63
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.03
SRR16705977	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
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.28
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.02
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.85
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.97
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.16
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.96
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.29
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.11
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.56
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.35
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.01
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.96
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.48
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.31
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.83
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.59
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.04
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.39
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.69
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.64
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.74
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.43
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.23
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.19
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.14
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.42
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.27
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	17.66
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.03
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.11
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.43
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.72
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.31
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
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.