halophFGD

Basic Information

Locus ID: Ag11G04218

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: RING-type E3 ubiquitin transferase

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr11	158396626	158404975	-	Ag11G04218

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
6.46	70,004.93 Da	38.70	102.72	-0.11

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd16664	RING-Ubox_PUB	256	298	1.43153E-27	-
Pfam	PF04564	U-box domain	252	322	5.0E-20	IPR003613
Pfam	PF00514	Armadillo/beta-catenin-like repeat	377	416	2.2E-7	IPR000225
Pfam	PF00514	Armadillo/beta-catenin-like repeat	460	498	1.1E-7	IPR000225
SUPERFAMILY	SSF57850	RING/U-box	242	326	2.08E-30	-
SUPERFAMILY	SSF48371	ARM repeat	351	629	3.31E-46	IPR016024
Gene3D	G3DSA:3.30.40.10	Zinc/RING finger domain, C3HC4 (zinc finger)	249	325	2.6E-28	IPR013083
Gene3D	G3DSA:1.20.930.20	-	8	121	4.3E-7	IPR036537
Gene3D	G3DSA:1.25.10.10	-	339	638	1.3E-50	IPR011989
SMART	SM00185	arm_5	541	581	140.0	IPR000225
SMART	SM00185	arm_5	500	540	15.0	IPR000225
SMART	SM00185	arm_5	459	499	0.061	IPR000225
SMART	SM00185	arm_5	418	458	340.0	IPR000225
SMART	SM00185	arm_5	377	417	8.2E-4	IPR000225
SMART	SM00504	Ubox_2	255	318	2.1E-33	IPR003613
ProSiteProfiles	PS50176	Armadillo/plakoglobin ARM repeat profile.	470	512	9.3274	IPR000225
ProSiteProfiles	PS51698	U-box domain profile.	251	325	42.337288	IPR003613
Coils	Coil	Coil	125	145	-	-

Gene Ontology

Biological Process:

GO:0007166 (cell surface receptor signaling pathway) GO:0016567 (protein ubiquitination)

Molecular Function:

GO:0004842 (ubiquitin-protein transferase activity) GO:0005515 (protein binding)

KEGG Pathway

KO Term:

K04733 (interleukin-1 receptor-associated kinase 4 [EC:2.7.11.1])

Pathway:

ko04010 (MAPK signaling pathway) map04010 (MAPK signaling pathway) map04064 (NF-kappa B signaling pathway) map04620 (Toll-like receptor signaling pathway) map04621 (NOD-like receptor signaling pathway) ko04624 (Toll and Imd signaling pathway) map04624 (Toll and Imd signaling pathway)

Best hit

Source	Best Hit ID	Description
TAIR	AT3G46510.1	plant U-box 13. Encodes a protein containing a UND, a U-box, and an ARM domain. This protein has E3 ubiquitin ligase activity based on in vitro assays. Can be phosphorylated in vitro by MLPK, ARK1, and ARK2 but not by SD1-29.
RefSeq	XP_017235063.1	PREDICTED: U-box domain-containing protein 13-like [Daucus carota subsp. sativus]
Swiss-Prot	Q9SNC6	U-box domain-containing protein 13 OS=Arabidopsis thaliana OX=3702 GN=PUB13 PE=1 SV=1
TrEMBL	A0A5B6ZX12	RING-type E3 ubiquitin transferase OS=Davidia involucrata OX=16924 GN=Din_018340 PE=4 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	3.050247	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	2.421373	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	2.437256	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	2.032989	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	2.334241	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	1.932106	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	2.340802	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	2.179458	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	1.196772	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	2.293244	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	1.382304	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	2.071585	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	1.497931	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	2.131477	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	1.117797	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	0.739327	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	0.949396	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	0.417925	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	0.37216	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	0.391277	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	0.377464	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	1.070898	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	0.583392	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	1.047235	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	0.965719	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	1.726398	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	1.490501	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	0.669733	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	0.815192	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	0.193668		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	0.449153		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	0.427842		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	0.611343		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	1.077049		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	0.256956		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	0.221847		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	0.2142		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	0.358611		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	0.640675	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	0.529689	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	0	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	0.990415	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	0.958653	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	0.978803	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	1.149025	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	0.683175	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	1.428713	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	2.106142	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	1.381444	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	0.829111	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	jg16608, jg37967, jg9770
Aizoaceae	Mesembryanthemum crystallinum	2	gene_4197, gene_7013
Amaranthaceae	Atriplex hortensis	2	Ah020571, Ah028053
Amaranthaceae	Beta vulgaris	1	BVRB_7g174060
Amaranthaceae	Salicornia bigelovii	4	Sbi_jg1783, Sbi_jg34742, Sbi_jg51629, Sbi_jg5432
Amaranthaceae	Salicornia europaea	2	Seu_jg13308, Seu_jg2980
Amaranthaceae	Suaeda aralocaspica	2	GOSA_00003175, GOSA_00016978
Amaranthaceae	Suaeda glauca	5	Sgl04036, Sgl05763, Sgl09104, Sgl73002, Sgl76542
Amaranthaceae	Chenopodium album	8	gene:ENSEOMG00000006572, gene:ENSEOMG00000013921 ... gene:ENSEOMG00000029448, gene:ENSEOMG00000037436, gene:ENSEOMG00000038134, gene:ENSEOMG00000044999, gene:ENSEOMG00000046763, gene:ENSEOMG00000047731
Amaranthaceae	Chenopodium quinoa	4	CQ.Regalona.r1.3AG0015700, CQ.Regalona.r1.3BG0016420 ... CQ.Regalona.r1.7AG0002630, CQ.Regalona.r1.9BG0003030
Anacardiaceae	Pistacia vera	3	pistato.v30060070, pistato.v30170740, pistato.v30174400
Apiaceae	Apium graveolens	4	Ag11G04218, Ag11G04642, Ag2G00878, Ag6G02529
Arecaceae	Cocos nucifera	4	COCNU_04G001930, COCNU_04G015200, COCNU_08G011140 ... COCNU_09G008700
Arecaceae	Phoenix dactylifera	4	gene-LOC103703458, gene-LOC103707003, gene-LOC103714880 ... gene-LOC103716511
Asparagaceae	Asparagus officinalis	2	AsparagusV1_01.706.V1.1, AsparagusV1_07.243.V1.1
Asteraceae	Flaveria trinervia	2	Ftri10G29210, Ftri15G25772
Brassicaceae	Arabidopsis thaliana	3	AT2G28830.1, AT3G46510.1, AT3G54850.1
Brassicaceae	Eutrema salsugineum	3	Thhalv10002430m.g.v1.0, Thhalv10010199m.g.v1.0 ... Thhalv10016364m.g.v1.0
Brassicaceae	Schrenkiella parvula	3	Sp4g11660.v2.2, Sp5g07570.v2.2, Sp5g15170.v2.2
Brassicaceae	Brassica nigra	4	BniB01g015020.2N, BniB05g053580.2N, BniB08g059170.2N ... BniB08g069190.2N
Casuarinaceae	Casuarina equisetifolia	3	Ceq02G0566, Ceq08G1173, Ceq08G2194
Casuarinaceae	Casuarina glauca	4	Cgl02G0580, Cgl08G1202, Cgl08G2354, Cgl08G2355
Cymodoceaceae	Cymodocea nodosa	2	gene.Cymno03g05260, gene.Cymno05g18630
Hydrocharitaceae	Thalassia testudinum	2	gene.Thate01g00570, gene.Thate08g01980
Malvaceae	Hibiscus hamabo Siebold & Zucc.	2	nbisL1-mrna-4043, nbisL1-mrna-534
Nitrariaceae	Nitraria sibirica	2	evm.TU.LG02.1077, evm.TU.LG09.1290
Plantaginaceae	Plantago ovata	2	Pov_00016151, Pov_00040306
Plumbaginaceae	Limonium bicolor	3	Lb1G05291, Lb6G31654, Lb6G31660
Poaceae	Echinochloa crus-galli	9	AH01.4170, AH05.3799, AH06.17, BH01.4488, BH05.3849, BH06.8 ... CH02.1528, CH05.4069, CH06.9
Poaceae	Eleusine coracana subsp. coracana	6	gene-QOZ80_3AG0242900, gene-QOZ80_3BG0285250 ... gene-QOZ80_5AG0394700, gene-QOZ80_5BG0442930, gene-QOZ80_6AG0505480, gene-QOZ80_6BG0457550
Poaceae	Hordeum vulgare	3	HORVU.MOREX.r3.4HG0388130.1, HORVU.MOREX.r3.5HG0441810.1 ... HORVU.MOREX.r3.7HG0634480.1
Poaceae	Lolium multiflorum	2	gene-QYE76_001658, gene-QYE76_068989
Poaceae	Oryza coarctata	6	Oco05G009570, Oco06G009920, Oco11G000150, Oco12G000090 ... Oco23G008850, Oco24G008410
Poaceae	Oryza sativa	3	LOC_Os03g16824.1, LOC_Os06g01304.1, LOC_Os12g38210.1
Poaceae	Paspalum vaginatum	3	gene-BS78_01G401000, gene-BS78_08G112800 ... gene-BS78_10G000500
Poaceae	Puccinellia tenuiflora	5	Pt_Chr0102325, Pt_Chr0301155, Pt_Chr0404067, Pt_Chr0404088 ... Pt_Chr0703985
Poaceae	Sporobolus alterniflorus	8	Chr01G031080, Chr04G007800, Chr04G017450, Chr06G018050 ... Chr07G003810, Chr12G008570, Chr14G000030, Chr14G000370
Poaceae	Thinopyrum elongatum	3	Tel4E01G364300, Tel5E01G162300, Tel7E01G011600
Poaceae	Triticum dicoccoides	6	gene_TRIDC4AG013310, gene_TRIDC4AG070720 ... gene_TRIDC4BG037090, gene_TRIDC5AG012420, gene_TRIDC5BG014370, gene_TRIDC7AG000270
Poaceae	Triticum aestivum	9	TraesCS4A02G097700.1, TraesCS4A02G498700.1 ... TraesCS4B02G206900.1, TraesCS4D02G207700.2, TraesCS5A02G078400.1, TraesCS5B02G087500.1, TraesCS5D02G093700.1, TraesCS7A02G001900.1, TraesCS7D02G001600.2
Poaceae	Zea mays	5	Zm00001eb011860_P001, Zm00001eb012430_P001 ... Zm00001eb029250_P001, Zm00001eb136450_P002, Zm00001eb379620_P001
Poaceae	Zoysia japonica	3	nbis-gene-2078, nbis-gene-30382, nbis-gene-53463
Poaceae	Zoysia macrostachya	4	Zma_g14358, Zma_g1524, Zma_g26007, Zma_g28948
Portulacaceae	Portulaca oleracea	4	evm.TU.LG03.2046, evm.TU.LG14.346, evm.TU.LG19.844 ... evm.TU.LG24.839
Posidoniaceae	Posidonia oceanica	2	gene.Posoc01g38200, gene.Posoc02g13280
Rhizophoraceae	Bruguiera sexangula	4	evm.TU.Scaffold_12_RagTag.265, evm.TU.Scaffold_13_RagTag.812 ... evm.TU.Scaffold_17_RagTag.351, evm.TU.Scaffold_4_RagTag.1594
Rhizophoraceae	Carallia pectinifolia	3	nbisL1-mrna-24538, nbisL1-mrna-26145, nbisL1-mrna-30204
Rhizophoraceae	Ceriops tagal	3	nbisL1-mrna-19664, nbisL1-mrna-6934, nbisL1-mrna-7162
Rhizophoraceae	Ceriops zippeliana	3	nbisL1-mrna-16201, nbisL1-mrna-19543, nbisL1-mrna-4415
Rhizophoraceae	Kandelia candel	3	evm.TU.utg000008l.872, evm.TU.utg000015l.485 ... evm.TU.utg000027l.413
Rhizophoraceae	Kandelia obovata	3	Maker00001400, Maker00015774, Maker00018087
Rhizophoraceae	Rhizophora apiculata	3	nbisL1-mrna-2180, nbisL1-mrna-4403, nbisL1-mrna-5573
Rhizophoraceae	Rhizophora mangle	4	nbisL1-mrna-11768, nbisL1-mrna-14976, nbisL1-mrna-7647 ... nbisL1-mrna-9575
Salicaceae	Populus euphratica	7	populus_peu02135, populus_peu05278, populus_peu06234 ... populus_peu20071, populus_peu22203, populus_peu35657, populus_peu38086
Solanaceae	Lycium barbarum	3	gene-LOC132605600, gene-LOC132615947, gene-LOC132643553
Solanaceae	Solanum chilense	3	SOLCI003200800, SOLCI004321900, SOLCI005398500
Solanaceae	Solanum pennellii	3	gene-LOC107002892, gene-LOC107005019, gene-LOC107023468
Tamaricaceae	Reaumuria soongarica	2	STRG.4903_chr03_-, STRG.7673_chr05_-
Tamaricaceae	Tamarix chinensis	3	TC02G1024, TC11G1549, TC11G2178
Zosteraceae	Zostera marina	2	Zosma01g25140.v3.1, Zosma04g22820.v3.1