halophFGD

Basic Information

Locus ID: Ag4G02289

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non- clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr4	292779512	292785511	-	Ag4G02289

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
6.67	137,001.06 Da	35.15	93.53	-0.22

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd00200	WD40	9	317	8.57731E-73	-
Pfam	PF00400	WD domain, G-beta repeat	198	231	3.6E-4	IPR001680
Pfam	PF00400	WD domain, G-beta repeat	45	79	7.9E-5	IPR001680
Pfam	PF00400	WD domain, G-beta repeat	241	276	2.1E-5	IPR001680
Pfam	PF06957	Coatomer (COPI) alpha subunit C-terminus	815	1215	1.4E-167	IPR010714
Pfam	PF00400	WD domain, G-beta repeat	126	163	6.6E-7	IPR001680
Pfam	PF04053	Coatomer WD associated region	344	768	2.7E-130	IPR006692
Pfam	PF00400	WD domain, G-beta repeat	84	121	4.8E-8	IPR001680
SUPERFAMILY	SSF82171	DPP6 N-terminal domain-like	323	595	7.06E-9	-
SUPERFAMILY	SSF50978	WD40 repeat-like	4	315	2.23E-70	IPR036322
Gene3D	G3DSA:2.130.10.10	-	1	319	7.8E-122	IPR015943
Gene3D	G3DSA:1.25.40.470	-	640	812	7.7E-65	-
SMART	SM00320	WD40_4	279	317	88.0	IPR001680
SMART	SM00320	WD40_4	124	163	4.7E-10	IPR001680
SMART	SM00320	WD40_4	237	276	4.1E-6	IPR001680
SMART	SM00320	WD40_4	40	79	1.9E-6	IPR001680
SMART	SM00320	WD40_4	193	232	3.4E-6	IPR001680
SMART	SM00320	WD40_4	82	121	2.5E-8	IPR001680
SMART	SM00320	WD40_4	2	37	31.0	IPR001680
PIRSF	PIRSF003354	Alpha-COP	1	1211	0.0	IPR016391
ProSiteProfiles	PS50082	Trp-Asp (WD) repeats profile.	89	130	13.549507	IPR001680
ProSiteProfiles	PS50294	Trp-Asp (WD) repeats circular profile.	47	79	10.337415	-
ProSiteProfiles	PS50294	Trp-Asp (WD) repeats circular profile.	131	164	12.103769	-
ProSiteProfiles	PS50082	Trp-Asp (WD) repeats profile.	244	285	14.552052	IPR001680
ProSiteProfiles	PS50082	Trp-Asp (WD) repeats profile.	200	241	13.11507	IPR001680
ProSiteProfiles	PS50294	Trp-Asp (WD) repeats circular profile.	89	121	10.759232	-
ProSiteProfiles	PS50294	Trp-Asp (WD) repeats circular profile.	244	276	11.73468	-
ProSiteProfiles	PS50082	Trp-Asp (WD) repeats profile.	47	88	12.680634	IPR001680
ProSiteProfiles	PS50082	Trp-Asp (WD) repeats profile.	131	164	14.652308	IPR001680
ProSiteProfiles	PS50294	Trp-Asp (WD) repeats circular profile.	200	234	10.68014	-
ProSitePatterns	PS00678	Trp-Asp (WD) repeats signature.	150	164	-	IPR019775
PRINTS	PR00320	G protein beta WD-40 repeat signature	150	164	5.4E-7	IPR020472
PRINTS	PR00320	G protein beta WD-40 repeat signature	263	277	5.4E-7	IPR020472
PRINTS	PR00320	G protein beta WD-40 repeat signature	108	122	5.4E-7	IPR020472
Coils	Coil	Coil	1122	1149	-	-

Gene Ontology

Biological Process:

GO:0006886 (intracellular protein transport) GO:0016192 (vesicle-mediated transport)

Molecular Function:

GO:0005198 (structural molecule activity) GO:0005515 (protein binding)

Cellular Component:

GO:0030117 (membrane coat) GO:0030126 (COPI vesicle coat)

KEGG Pathway

KO Term:

K05236 (coatomer subunit alpha)

Best hit

Source	Best Hit ID	Description
TAIR	AT1G62020.1	Coatomer, alpha subunit.
RefSeq	XP_017241607.1	PREDICTED: coatomer subunit alpha-1-like [Daucus carota subsp. sativus]
Swiss-Prot	Q94A40	Coatomer subunit alpha-1 OS=Arabidopsis thaliana OX=3702 GN=At1g62020 PE=2 SV=2
TrEMBL	A0A166AG48	Coatomer subunit alpha OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_009950 PE=4 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	39.391235	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	24.468496	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	21.168892	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	22.02841	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	23.450319	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	16.078213	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	16.350233	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	11.345356	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	51.962326	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	47.303387	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	57.190861	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	55.242474	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	51.968082	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	39.417046	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	57.038143	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	60.025074	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	50.847828	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	47.221767	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	33.71117	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	39.726711	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	35.691349	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	42.943932	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	47.203499	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	43.819599	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	41.247387	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	45.698742	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	38.714848	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	27.998295	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	43.636444	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	4.653705		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	6.115359		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	5.744551		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	14.392219		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	18.361416		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	15.330076		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	9.094728		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	4.868456		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	6.365465		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	31.974936	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	16.391581	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	6.649291	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	15.801468	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	18.954679	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	18.609112	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	17.71142	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	14.018667	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	21.725815	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	33.39679	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	28.867374	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	26.521643	Jinnan Shiqin	flower bud	early flowering period	early flowering period

Network

🔍 Co-expression Network

🔍 Protein-Protein Interaction Network

Orthology

Family	Species	Count	Orthologous Genes
Acanthaceae	Avicennia marina	3	jg11823, jg22921, jg6331
Aizoaceae	Mesembryanthemum crystallinum	2	gene_21686, gene_23066
Amaranthaceae	Atriplex hortensis	2	Ah010166, Ah023494
Amaranthaceae	Beta vulgaris	2	BVRB_1g006300, BVRB_9g216820
Amaranthaceae	Salicornia bigelovii	4	Sbi_jg12377, Sbi_jg28837, Sbi_jg3100, Sbi_jg45965
Amaranthaceae	Salicornia europaea	2	Seu_jg20296, Seu_jg6800
Amaranthaceae	Suaeda aralocaspica	3	GOSA_00000002, GOSA_00005641, GOSA_00022497
Amaranthaceae	Suaeda glauca	4	Sgl11621, Sgl17119, Sgl56148, Sgl60851
Amaranthaceae	Chenopodium album	5	gene:ENSEOMG00000013151, gene:ENSEOMG00000018082 ... gene:ENSEOMG00000035845, gene:ENSEOMG00000048140, gene:ENSEOMG00000049535
Amaranthaceae	Chenopodium quinoa	4	CQ.Regalona.r1.1AG0009120, CQ.Regalona.r1.1BG0016730 ... CQ.Regalona.r1.7BG0007040, CQ.Regalona.r1.9AG0017560
Anacardiaceae	Pistacia vera	2	pistato.v30047210, pistato.v30115410
Apiaceae	Apium graveolens	3	Ag1G00944, Ag4G02289, Ag9G00871
Arecaceae	Cocos nucifera	4	COCNU_07G005410, COCNU_10G003700, COCNU_10G003710 ... COCNU_16G003990
Arecaceae	Phoenix dactylifera	4	gene-LOC103707916, gene-LOC103711684, gene-LOC103711687 ... gene-LOC103716534
Asparagaceae	Asparagus officinalis	5	AsparagusV1_03.1564.V1.1, AsparagusV1_03.1565.V1.1 ... AsparagusV1_03.297.V1.1, AsparagusV1_03.298.V1.1, AsparagusV1_07.3590.V1.1
Asteraceae	Flaveria trinervia	3	Ftri10G00265, Ftri9G15036, Ftri9G25855
Brassicaceae	Arabidopsis thaliana	2	AT1G62020.1, AT2G21390.1
Brassicaceae	Eutrema salsugineum	3	Thhalv10000016m.g.v1.0, Thhalv10024239m.g.v1.0 ... Thhalv10024240m.g.v1.0
Brassicaceae	Schrenkiella parvula	3	Sp7g36760.v2.2, SpUn0316_0020.v2.2, SpUn0316_0030.v2.2
Brassicaceae	Brassica nigra	5	BniB02g017130.2N, BniB02g051810.2N, BniB02g089160.2N ... BniB03g015090.2N, BniB05g000410.2N
Casuarinaceae	Casuarina equisetifolia	2	Ceq03G0943, Ceq07G1531
Casuarinaceae	Casuarina glauca	1	Cgl07G1629
Cymodoceaceae	Cymodocea nodosa	2	gene.Cymno15g04040, gene.Cymno18g03810
Dunaliellaceae	Dunaliella salina	3	Dusal.1106s00001.v1.0, Dusal.1106s00002.v1.0 ... Dusal.1106s00003.v1.0
Hydrocharitaceae	Thalassia testudinum	2	gene.Thate02g04720, gene.Thate07g02870
Nitrariaceae	Nitraria sibirica	2	evm.TU.LG08.198, evm.TU.LG08.200
Plantaginaceae	Plantago ovata	3	Pov_00002523, Pov_00028976, Pov_00032513
Plumbaginaceae	Limonium bicolor	5	Lb3G17297, Lb3G17302, Lb3G17306, Lb4G25861, Lb4G25871
Poaceae	Echinochloa crus-galli	8	AH01.852, AH02.290, BH01.996, BH02.309, BH02.313, CH01.1040 ... CH02.341, CH02.344
Poaceae	Eleusine coracana subsp. coracana	4	gene-QOZ80_3AG0219120, gene-QOZ80_3AG0232670 ... gene-QOZ80_3BG0264450, gene-QOZ80_3BG0295300
Poaceae	Hordeum vulgare	2	HORVU.MOREX.r3.4HG0337110.1, HORVU.MOREX.r3.4HG0416190.1
Poaceae	Lolium multiflorum	2	gene-QYE76_062439, gene-QYE76_062878
Poaceae	Oryza coarctata	5	Oco05G021610, Oco05G021620, Oco06G022410, Oco09G003640 ... Oco17G000570
Poaceae	Oryza sativa	3	LOC_Os03g50340.1, LOC_Os03g50350.1, LOC_Os09g04110.1
Poaceae	Paspalum vaginatum	2	gene-BS78_01G107100, gene-BS78_04G305200
Poaceae	Puccinellia tenuiflora	3	Pt_Chr0101032, Pt_Chr0101145, Pt_Chr0105043
Poaceae	Sporobolus alterniflorus	10	Chr01G007080, Chr01G007120, Chr04G005190, Chr04G026930 ... Chr04G026940, Chr06G030160, Chr06G032340, Chr07G025920, Chr09G002000, Chr12G030370
Poaceae	Thinopyrum elongatum	2	Tel4E01G082500, Tel4E01G606600
Poaceae	Triticum dicoccoides	4	gene_TRIDC4AG041810, gene_TRIDC4BG007220 ... gene_TRIDC4BG062010, gene_TRIDC5AG076630
Poaceae	Triticum aestivum	6	TraesCS4A02G268100.1, TraesCS4B02G046300.1 ... TraesCS4B02G373400.1, TraesCS4D02G045800.1, TraesCS4D02G363900.2, TraesCS5A02G540800.1
Poaceae	Zea mays	3	Zm00001eb054910_P001, Zm00001eb120410_P002 ... Zm00001eb216390_P001
Poaceae	Zoysia japonica	3	nbis-gene-1014, nbis-gene-14818, nbis-gene-15917
Poaceae	Zoysia macrostachya	3	Zma_g2957, Zma_g6445, Zma_g648
Portulacaceae	Portulaca oleracea	6	evm.TU.LG02.319, evm.TU.LG08.1772, evm.TU.LG09.1603 ... evm.TU.LG19.583, evm.TU.LG22.723, evm.TU.LG24.47
Posidoniaceae	Posidonia oceanica	3	gene.Posoc02g18990, gene.Posoc07g04700, gene.Posoc09g02360
Rhizophoraceae	Bruguiera sexangula	3	evm.TU.Scaffold_1_RagTag.2232, evm.TU.Scaffold_2_RagTag.172 ... evm.TU.Scaffold_8_RagTag.1274
Rhizophoraceae	Carallia pectinifolia	1	nbisL1-mrna-5035
Rhizophoraceae	Ceriops tagal	3	nbisL1-mrna-11826, nbisL1-mrna-14291, nbisL1-mrna-9935
Rhizophoraceae	Ceriops zippeliana	3	nbisL1-mrna-15371, nbisL1-mrna-3317, nbisL1-mrna-9423
Rhizophoraceae	Kandelia candel	3	evm.TU.utg000009l.1129, evm.TU.utg000016l.127 ... evm.TU.utg000018l.414
Rhizophoraceae	Kandelia obovata	3	Maker00003675, Maker00005137, Maker00016473
Rhizophoraceae	Rhizophora apiculata	2	nbisL1-mrna-13348, nbisL1-mrna-14177
Rhizophoraceae	Rhizophora mangle	3	nbisL1-mrna-11130, nbisL1-mrna-14153, nbisL1-mrna-21077
Salicaceae	Populus euphratica	4	populus_peu28573, populus_peu29997, populus_peu30017 ... populus_peu30018
Solanaceae	Lycium barbarum	2	gene-LOC132617058, gene-LOC132628078
Solanaceae	Solanum chilense	1	SOLCI001135400
Solanaceae	Solanum pennellii	2	gene-LOC107017620, gene-LOC107025827
Tamaricaceae	Reaumuria soongarica	3	STRG.18510_chr09_-, gene_15460, gene_7841
Tamaricaceae	Tamarix chinensis	4	TC09G0602, TC10G0426, TC12G0987, TC12G0989
Zosteraceae	Zostera marina	2	Zosma01g07520.v3.1, Zosma05g00460.v3.1