Gene detail

Detailed information of OS493_008184-T1 in Lophelia pertusa

Genomic Location: scaffold_19:790970...793231
NR annotation: KAJ7392943.1, Trafficking protein particle complex subunit 2 [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
Q9CQP2	Trafficking protein particle complex subunit 2 OS=Mus musculus OX=10090 GN=Trappc2 PE=1 SV=1
A7RVK7	Probable trafficking protein particle complex subunit 2 OS=Nematostella vectensis OX=45351 GN=v1g94938 PE=3 SV=1
Q08CN0	Trafficking protein particle complex subunit 2 OS=Danio rerio OX=7955 GN=trappc2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009268 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04628 all species →	Sedlin_N	Sedlin, N-terminal conserved region	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006722 all species →	Family	Trafficking protein particle complex subunit 2	Interproscan
IPR011012 all species →	Homologous_superfamily	Longin-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12403 all species →	TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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_008184-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_008184-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

94.3Max TPM

33.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	23.93	42.80
polyp at pH7 6	18	18	23.90	42.19
coral polyp · control treatment	16	16	46.80	77.44
coral polyp · oil and dispersant treatment	16	16	42.07	94.31
coral polyp · oil treatment	16	16	35.71	51.26
coral polyp · dispersant treatment	16	16	32.04	49.40
Polyp	10	10	28.08	47.28

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	-	42.80
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.52
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.10
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.38
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.98
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.40
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.15
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.31
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.22
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.35
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.66
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.19
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.35
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.60
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.24
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.95
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.38
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.19
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.62
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.69
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.90
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.52
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.96
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.19
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.99
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.75
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.73
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.22
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.70
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.26
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.05
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.32
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.14
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.23
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.72
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.44
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.91
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.30
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.97
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.09
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.49
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.42
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.07
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.38
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.88
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.68
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.25
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.16
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.10
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.42
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.21
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	94.31
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.59
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.89
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.77
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.39
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.35
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.36
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.43
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.02
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.27
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.16
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.68
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.79
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.98
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.04
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.26
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.49
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.75
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.44
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.68
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.85
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.34
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.62
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.61
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.20
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.60
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.87
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.62
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.97
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.22
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.40
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.28
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.10
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.63
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.15
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.04
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.76
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.45
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.48
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.25
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.13
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.05
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.28
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.24
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.48
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.89
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	47.28
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	45.53
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	38.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	27.95
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	27.73
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	27.13
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	25.42
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	16.26
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	13.92
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.19

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.