Gene detail

Detailed information of OS493_022284-T1 in Lophelia pertusa

Genomic Location: scaffold_90:1322820...1324837
NR annotation: KAJ7330669.1, Golgi transport 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
Q8CI04	Conserved oligomeric Golgi complex subunit 3 OS=Mus musculus OX=10090 GN=Cog3 PE=1 SV=3
Q96JB2	Conserved oligomeric Golgi complex subunit 3 OS=Homo sapiens OX=9606 GN=COG3 PE=1 SV=3
Q961G1	Conserved oligomeric Golgi complex subunit 3 OS=Drosophila melanogaster OX=7227 GN=Cog3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003294 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF20671 all species →	COG3_C	Conserved oligomeric Golgi complex subunit 3, C-terminal	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007265 all species →	Family	Conserved oligomeric Golgi complex, subunit 3	Interproscan
IPR048685 all species →	Domain	Conserved oligomeric Golgi complex subunit 3, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13302 all species →	CONSERVED OLIGOMERIC GOLGI COMPLEX COMPONENT 3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005801 all species →	Cellular Component	cis-Golgi network	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0006891 all species →	Biological Process	intra-Golgi vesicle-mediated transport	Interproscan
GO:0007030 all species →	Biological Process	Golgi organization	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0017119 all species →	Cellular Component	Golgi transport 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_022284-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_022284-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

106TPM > 0

7Conditions

21.7Max TPM

5.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	4.84	8.03
polyp at pH7 6	18	16	4.92	9.55
coral polyp · control treatment	16	16	6.31	9.78
coral polyp · oil and dispersant treatment	16	16	4.44	8.53
coral polyp · oil treatment	16	16	6.13	11.75
coral polyp · dispersant treatment	16	16	4.50	9.71
Polyp	10	9	5.93	21.67

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.73
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.69
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.37
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.81
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.52
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.80
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.44
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.11
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.79
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.59
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.28
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.26
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.19
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.85
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.32
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.38
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.55
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.86
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.77
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.62
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.81
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.10
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.42
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.97
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.24
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.13
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.12
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.11
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.35
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.11
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.41
SRR11359501	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
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.78
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.43
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.05
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.75
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.53
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.07
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.04
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.95
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.68
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.40
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.48
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.99
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.33
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.05
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.64
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.53
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.98
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.62
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.84
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.65
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.14
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.06
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.57
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.51
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.38
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.33
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.94
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.48
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.48
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.37
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.75
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.91
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.78
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.53
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.49
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.02
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.00
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.38
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.08
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.84
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.43
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.35
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.16
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.92
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.80
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.66
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.71
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.61
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.26
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.17
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.70
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.61
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.10
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.02
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.87
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.81
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.71
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.37
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.66
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.47
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.69
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	21.67
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.27
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.67
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.64
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.09
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.46
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.32
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.73
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.49
SRR7746667	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.