Gene detail

Detailed information of OS493_000080-T1 in Lophelia pertusa

Genomic Location: scaffold_1:959064...962773
NR annotation: KAJ7394278.1, Trafficking protein particle complex subunit 10 [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
Q3TLI0	Trafficking protein particle complex subunit 10 OS=Mus musculus OX=10090 GN=Trappc10 PE=1 SV=3
P48553	Trafficking protein particle complex subunit 10 OS=Homo sapiens OX=9606 GN=TRAPPC10 PE=1 SV=2
Q9VFB7	Trafficking protein particle complex subunit 10 OS=Drosophila melanogaster OX=7227 GN=SIDL PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003366 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_000080-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR045126 all species →	Family	Trafficking protein particle complex subunit TRAPPC10/Trs130	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13251 all species →	EPILEPSY HOLOPROSENCEPHALY CANDIDATE 1/TMEM1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006891 all species →	Biological Process	intra-Golgi vesicle-mediated transport	Interproscan
GO:0034498 all species →	Biological Process	early endosome to Golgi transport	Interproscan
GO:0048193 all species →	Biological Process	Golgi vesicle transport	Interproscan
GO:1990071 all species →	Cellular Component	TRAPPII protein 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_000080-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_000080-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

107TPM > 0

7Conditions

22.0Max TPM

10.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	13.38	21.99
polyp at pH7 6	18	16	11.67	19.51
coral polyp · control treatment	16	16	11.38	20.24
coral polyp · oil and dispersant treatment	16	16	9.38	17.76
coral polyp · oil treatment	16	16	11.58	21.09
coral polyp · dispersant treatment	16	16	9.09	17.89
Polyp	10	9	4.44	7.63

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.99
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.11
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.61
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.11
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.18
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.85
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.03
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.29
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.04
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.84
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.45
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.95
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.52
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.11
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.22
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.58
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.33
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.51
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.12
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.28
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.21
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.20
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.28
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.83
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.70
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.21
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.71
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.67
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.40
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.74
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.51
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.06
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.57
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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.24
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.27
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.69
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.48
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.41
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.99
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.27
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.69
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.44
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.74
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.38
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.23
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.99
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.91
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.73
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.66
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.76
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.99
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.80
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.15
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.28
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.22
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.13
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.81
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.12
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.68
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.38
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.61
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.22
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.88
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.09
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.01
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.61
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.24
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.14
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.34
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.03
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.01
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.45
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.54
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.08
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.94
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.89
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.89
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.06
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.95
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.89
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.13
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.47
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.28
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.08
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.98
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.57
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.51
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.76
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.55
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.43
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.12
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.15
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.76
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.41
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.36
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.63
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.57
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.83
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.48
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.79
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.92
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.66
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.29
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.22
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.