Gene detail

Detailed information of OS493_015000-T1 in Lophelia pertusa

Genomic Location: scaffold_43:1949374...1953865
NR annotation: KAJ7392055.1, Coatomer subunit zeta-1 [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
P35604	Coatomer subunit zeta-1 OS=Bos taurus OX=9913 GN=COPZ1 PE=1 SV=2
P61923	Coatomer subunit zeta-1 OS=Homo sapiens OX=9606 GN=COPZ1 PE=1 SV=1
P61924	Coatomer subunit zeta-1 OS=Mus musculus OX=10090 GN=Copz1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007425 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01217 all species →	Clat_adaptor_s	Clathrin adaptor complex small chain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039652 all species →	Family	Coatomer subunit zeta	Interproscan
IPR022775 all species →	Domain	AP complex, mu/sigma subunit	Interproscan
IPR011012 all species →	Homologous_superfamily	Longin-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11043 all species →	ZETA-COAT PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0006890 all species →	Biological Process	retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum	Interproscan
GO:0006891 all species →	Biological Process	intra-Golgi vesicle-mediated transport	Interproscan
GO:0030126 all species →	Cellular Component	COPI vesicle coat	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K20472	COPZ, RET3; coatomer subunit zeta	-	Membrane trafficking	ko04131	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_015000-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

122.7Max TPM

63.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	40.15	64.94
polyp at pH7 6	18	18	46.61	74.09
coral polyp · control treatment	16	16	83.00	110.02
coral polyp · oil and dispersant treatment	16	16	90.04	122.65
coral polyp · oil treatment	16	16	70.96	101.65
coral polyp · dispersant treatment	16	16	63.50	97.93
Polyp	10	10	51.21	83.85

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.94
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.03
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.50
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.20
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.06
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.08
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.60
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.52
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.11
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.83
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.31
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.08
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.62
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.12
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.55
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.04
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.76
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.35
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.09
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.55
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.37
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.17
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.56
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.21
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.60
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.63
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.37
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.09
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.16
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.41
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.03
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.36
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.76
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.31
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	110.02
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	108.09
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	103.07
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	102.13
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.16
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	96.75
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	92.73
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	89.87
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	85.86
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.24
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.42
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.29
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.73
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.95
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.09
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.52
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	122.65
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	122.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	119.46
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	117.77
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	111.20
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	105.60
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	90.35
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	89.53
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.97
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.75
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	85.69
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.40
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.51
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.27
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.08
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.82
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	101.65
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	90.08
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	88.41
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	86.86
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.55
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.51
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.44
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.79
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.89
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.77
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.58
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.66
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.40
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.76
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.30
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.70
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	97.93
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	96.68
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	84.39
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	77.27
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	75.48
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	71.91
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.30
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	67.93
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.12
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.92
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.95
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.19
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.21
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.67
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.37
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.73
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	83.85
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	68.25
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	67.12
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	66.30
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	56.18
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	43.18
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	42.60
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	41.95
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	27.79
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	14.89

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.