Gene detail

Detailed information of OS493_021827-T1 in Lophelia pertusa

Genomic Location: scaffold_86:708457...716422
NR annotation: KAJ7384415.1, ER membrane complex subunit 6 [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
Q6GLC5	ER membrane protein complex subunit 6 OS=Xenopus tropicalis OX=8364 GN=emc6 PE=3 SV=1
Q6P0F0	ER membrane protein complex subunit 6 OS=Danio rerio OX=7955 GN=emc6 PE=3 SV=1
Q68EU8	ER membrane protein complex subunit 6 OS=Xenopus laevis OX=8355 GN=emc6 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009076 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07019 all species →	EMC6	EMC6	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029008 all species →	Family	ER membrane protein complex subunit 6-like	Interproscan
IPR008504 all species →	Family	ER membrane protein complex subunit 6	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20994 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000045 all species →	Biological Process	autophagosome assembly	Interproscan
GO:0005783 all species →	Cellular Component	endoplasmic reticulum	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0034975 all species →	Biological Process	protein folding in endoplasmic reticulum	Interproscan
GO:0072546 all species →	Cellular Component	EMC 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_021827-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_021827-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

108TPM > 0

7Conditions

54.1Max TPM

12.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.56	18.17
polyp at pH7 6	18	18	11.12	17.34
coral polyp · control treatment	16	16	15.83	54.07
coral polyp · oil and dispersant treatment	16	16	14.60	35.20
coral polyp · oil treatment	16	16	13.78	43.27
coral polyp · dispersant treatment	16	14	10.72	31.22
Polyp	10	10	13.59	26.61

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	-	18.17
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.93
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.61
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.59
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.47
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.06
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.94
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.89
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.29
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.85
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.53
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.14
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.72
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.60
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.55
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.26
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.45
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.01
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.34
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.28
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.06
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.45
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.06
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.79
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.48
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.27
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.16
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.54
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.79
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.02
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.93
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.65
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.96
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.94
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.51
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.07
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.22
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.26
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.85
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.49
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.47
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.16
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.05
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.78
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.19
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.46
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.13
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.22
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.99
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.92
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.20
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.21
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.81
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.64
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.78
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.57
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.06
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.14
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.19
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.32
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.15
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.81
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.70
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.59
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.43
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.27
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.06
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.13
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.78
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.74
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.53
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.57
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.66
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.56
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.39
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.74
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.52
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.15
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.09
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.74
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.62
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.22
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.56
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.80
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.73
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.49
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.61
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.18
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.69
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.28
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.42
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.30
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.22
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.90
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	26.61
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	20.50
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	20.06
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	19.77
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.03
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.03
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.86
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.32
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.95
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.76

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.