halophFGD

Basic Information

Locus ID: Ag2G00878

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
chr2	37941356	37946359	+	Ag2G00878

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
5.65	71,648.36 Da	37.39	99.32	-0.16

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd16664	RING-Ubox_PUB	263	305	5.3932E-28	-
Pfam	PF00514	Armadillo/beta-catenin-like repeat	472	507	1.1E-6	IPR000225
Pfam	PF04564	U-box domain	259	329	3.3E-21	IPR003613
Pfam	PF05536	Neurochondrin	520	628	6.7E-6	IPR008709
Pfam	PF00514	Armadillo/beta-catenin-like repeat	386	425	2.8E-9	IPR000225
SUPERFAMILY	SSF57850	RING/U-box	256	335	6.31E-32	-
SUPERFAMILY	SSF48371	ARM repeat	357	630	4.22E-50	IPR016024
Gene3D	G3DSA:3.30.40.10	Zinc/RING finger domain, C3HC4 (zinc finger)	258	332	1.8E-32	IPR013083
Gene3D	G3DSA:1.20.930.20	-	8	119	2.7E-8	IPR036537
Gene3D	G3DSA:1.25.10.10	-	340	656	2.6E-57	IPR011989
SMART	SM00185	arm_5	509	549	57.0	IPR000225
SMART	SM00185	arm_5	386	426	2.3E-6	IPR000225
SMART	SM00504	Ubox_2	262	325	1.3E-35	IPR003613
SMART	SM00185	arm_5	550	590	33.0	IPR000225
SMART	SM00185	arm_5	427	467	0.17	IPR000225
SMART	SM00185	arm_5	468	508	6.7	IPR000225
SMART	SM00185	arm_5	592	632	310.0	IPR000225
ProSiteProfiles	PS50176	Armadillo/plakoglobin ARM repeat profile.	397	439	11.3924	IPR000225
ProSiteProfiles	PS51698	U-box domain profile.	258	332	47.12281	IPR003613
MobiDBLite	mobidb-lite	consensus disorder prediction	227	255	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	227	254	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	639	658	-	-

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_017253040.1	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	A0A162A5F7	RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_018902 PE=4 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	11.507339	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	9.045933	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	9.783236	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	9.555894	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	8.984014	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	12.186312	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	14.447742	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	18.095009	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	30.225857	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	27.901983	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	28.557539	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	26.177723	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	25.16474	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	23.801018	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	77.23761	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	67.894798	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	81.309204	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	95.986839	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	56.391434	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	67.14753	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	76.893005	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	55.729118	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	63.301212	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	42.768223	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	54.100281	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	69.287666	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	88.233917	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	58.711815	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	62.889706	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	17.607805		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	14.996312		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	12.081327		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	23.427746		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	14.635845		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	28.999466		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	24.028856		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	16.283634		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	21.357971		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	42.611328	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	30.243668	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	29.93281	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	96.437141	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	106.018204	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	74.312057	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	53.533737	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	74.95533	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	79.337692	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	29.910501	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	23.430332	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	27.83955	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