Gene detail

Detailed information of OS493_034410-T1 in Lophelia pertusa

Genomic Location: scaffold_290:124799...132063
NR annotation: KAJ7382519.1, GTP-binding protein SAR1a [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
Q3T0T7	Small COPII coat GTPase SAR1B OS=Bos taurus OX=9913 GN=SAR1B PE=2 SV=1
Q9Y6B6	Small COPII coat GTPase SAR1B OS=Homo sapiens OX=9606 GN=SAR1B PE=1 SV=1
Q5HZY2	Small COPII coat GTPase SAR1B OS=Rattus norvegicus OX=10116 GN=Sar1b PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006774 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00025 all species →	Arf	ADP-ribosylation factor family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006689 all species →	Family	Small GTPase superfamily, ARF/SAR type	Interproscan
IPR006687 all species →	Family	Small GTPase superfamily, SAR1-type	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR005225 all species →	Domain	Small GTP-binding protein domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45684 all species →	RE74312P	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0003400 all species →	Biological Process	regulation of COPII vesicle coating	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0006888 all species →	Biological Process	endoplasmic reticulum to Golgi vesicle-mediated transport	Interproscan
GO:0016050 all species →	Biological Process	vesicle organization	Interproscan
GO:0030127 all species →	Cellular Component	COPII vesicle coat	Interproscan
GO:0061024 all species →	Biological Process	membrane organization	Interproscan
GO:0070863 all species →	Biological Process	positive regulation of protein exit from endoplasmic reticulum	Interproscan
GO:0070971 all species →	Cellular Component	endoplasmic reticulum exit site	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
K07953	SAR1; GTP-binding protein SAR1	EC:3.6.5.-	GTP-binding proteins	ko04031	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_034410-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

311.1Max TPM

77.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	31.76	45.81
polyp at pH7 6	18	18	39.13	57.98
coral polyp · control treatment	16	16	86.03	181.09
coral polyp · oil and dispersant treatment	16	16	147.66	227.62
coral polyp · oil treatment	16	16	67.74	108.63
coral polyp · dispersant treatment	16	16	131.37	311.11
Polyp	10	10	27.17	47.75

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	-	45.81
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.53
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.42
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.17
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.96
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.20
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.80
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.47
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.25
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.42
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.52
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.38
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.19
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.32
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.15
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.09
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.51
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.47
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.98
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.73
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.58
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.84
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.88
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.03
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.70
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.65
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.60
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.45
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.56
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.82
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.42
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.24
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.22
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.90
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.52
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.15
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	181.09
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	126.79
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	120.46
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.86
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	92.35
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	89.43
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.39
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.12
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.99
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.87
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.50
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.41
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.52
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.31
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.38
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.93
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	227.62
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	214.64
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	201.23
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	200.40
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	182.46
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	177.11
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	173.86
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	166.02
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	163.60
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	144.27
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	117.26
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	100.62
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.29
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.38
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.42
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.40
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	108.63
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	100.37
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	96.76
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.28
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.48
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.61
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	79.87
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.59
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.11
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.16
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.24
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.67
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.43
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.02
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.44
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	311.11
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	230.88
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	221.66
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	213.68
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	149.62
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	148.44
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	127.65
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	127.04
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	108.81
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	103.21
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	98.27
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	88.24
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	75.65
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	75.56
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.59
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.46
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	47.75
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	47.28
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	46.74
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	27.31
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	25.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.05
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	17.66
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	16.57
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	12.11
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.46

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.