halophFGD

Basic Information

Locus ID: Ag4G01015

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: E3 ubiquitin-protein ligase

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr4	106641509	106643067	+	Ag4G01015

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
7.18	24,588.61 Da	51.19	68.30	-0.23

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd16745	RING-HC_AtRMA_like	29	73	8.14581E-32	-
Pfam	PF13923	Zinc finger, C3HC4 type (RING finger)	30	71	2.7E-8	-
SUPERFAMILY	SSF57850	RING/U-box	27	84	9.43E-17	-
Gene3D	G3DSA:3.30.40.10	Zinc/RING finger domain, C3HC4 (zinc finger)	2	90	3.2E-17	IPR013083
SMART	SM00184	ring_2	31	71	2.1E-6	IPR001841
ProSiteProfiles	PS50089	Zinc finger RING-type profile.	31	72	13.035139	IPR001841
ProSitePatterns	PS00518	Zinc finger RING-type signature.	46	55	-	IPR017907
MobiDBLite	mobidb-lite	consensus disorder prediction	88	121	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	1	21	-	-

KEGG Pathway

KO Term:

K10666 (E3 ubiquitin-protein ligase RNF5/185 [EC:2.3.2.27])

Pathway:

ko04141 (Protein processing in endoplasmic reticulum) map04141 (Protein processing in endoplasmic reticulum)

Best hit

Source	Best Hit ID	Description
TAIR	AT2G23780.1	RING/U-box superfamily protein.
RefSeq	XP_017238193.1	PREDICTED: E3 ubiquitin-protein ligase RNF185-like [Daucus carota subsp. sativus]
Swiss-Prot	Q96GF1	E3 ubiquitin-protein ligase RNF185 OS=Homo sapiens OX=9606 GN=RNF185 PE=1 SV=1
TrEMBL	A0A166B163	RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_010970 PE=4 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	42.226883	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	34.892899	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	45.025631	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	39.351971	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	40.84407	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	45.307827	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	40.774261	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	52.314674	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	28.416401	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	27.455044	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	26.846395	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	23.461384	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	23.48613	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	24.07147	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	19.009905	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	18.5653	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	17.794367	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	19.098166	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	16.67874	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	23.859598	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	26.004608	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	34.401142	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	35.389515	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	29.377943	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	23.499685	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	21.883268	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	23.950834	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	22.824516	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	20.941589	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	23.321194		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	17.142719		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	19.582937		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	40.209827		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	30.015438		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	37.463905		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	32.31147		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	38.356983		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	31.46468		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	16.794914	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	16.927591	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	12.07905	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	56.458569	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	52.338226	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	33.651421	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	28.120001	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	36.022964	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	28.825249	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	27.262894	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	25.738787	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	25.265224	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	5	jg22835, jg28740, jg30616, jg40115, jg6290
Aizoaceae	Mesembryanthemum crystallinum	1	gene_6141
Amaranthaceae	Atriplex hortensis	1	Ah026606
Amaranthaceae	Beta vulgaris	1	BVRB_6g137930
Amaranthaceae	Salicornia bigelovii	2	Sbi_jg14773, Sbi_jg55552
Amaranthaceae	Salicornia europaea	1	Seu_jg26109
Amaranthaceae	Suaeda aralocaspica	1	GOSA_00013454
Amaranthaceae	Suaeda glauca	5	Sgl13147, Sgl14830, Sgl18363, Sgl34658, Sgl40080
Amaranthaceae	Chenopodium album	3	gene:ENSEOMG00000001862, gene:ENSEOMG00000003540 ... gene:ENSEOMG00000026657
Amaranthaceae	Chenopodium quinoa	2	CQ.Regalona.r1.6AG0018150, CQ.Regalona.r1.6BG0019220
Apiaceae	Apium graveolens	3	Ag2G00298, Ag4G01015, Ag9G00114
Arecaceae	Cocos nucifera	2	COCNU_06G019750, contig69365299G000010
Arecaceae	Phoenix dactylifera	2	gene-LOC103712294, gene-LOC103720777
Asparagaceae	Asparagus officinalis	4	AsparagusV1_01.1218.V1.1, AsparagusV1_03.803.V1.1 ... AsparagusV1_08.117.V1.1, AsparagusV1_Unassigned.444.V1.1
Asteraceae	Flaveria trinervia	4	Ftri10G07142, Ftri14G29928, Ftri16G00364, Ftri18G22676
Brassicaceae	Arabidopsis thaliana	3	AT1G19310.1, AT1G74990.1, AT2G23780.1
Brassicaceae	Eutrema salsugineum	3	Thhalv10000313m.g.v1.0, Thhalv10008430m.g.v1.0 ... Thhalv10019588m.g.v1.0
Brassicaceae	Schrenkiella parvula	3	Sp1g17210.v2.2, Sp4g02720.v2.2, Sp5g30120.v2.2
Brassicaceae	Brassica nigra	4	BniB01g019890.2N, BniB03g053390.2N, BniB04g033890.2N ... BniB06g002800.2N
Casuarinaceae	Casuarina equisetifolia	2	Ceq03G1649, Ceq05G0724
Casuarinaceae	Casuarina glauca	2	Cgl03G1770, Cgl05G0733
Cymodoceaceae	Cymodocea nodosa	2	gene.Cymno09g07270, gene.Cymno10g08990
Dunaliellaceae	Dunaliella salina	1	Dusal.0047s00001.v1.0
Hydrocharitaceae	Thalassia testudinum	2	gene.Thate02g10820, gene.Thate08g21250
Malvaceae	Hibiscus hamabo Siebold & Zucc.	5	nbisL1-mrna-10522, nbisL1-mrna-6601, nbisL1-mrna-7056 ... nbisL1-mrna-8859, nbisL1-mrna-9990
Nitrariaceae	Nitraria sibirica	2	evm.TU.LG02.2269, evm.TU.LG06.531
Plantaginaceae	Plantago ovata	4	Pov_00002412, Pov_00008118, Pov_00024059, Pov_00025608
Poaceae	Echinochloa crus-galli	7	AH05.4210, BH01.1187, BH02.3585, BH05.4297, CH01.1242 ... CH02.3110, CH05.4531
Poaceae	Eleusine coracana subsp. coracana	7	gene-QOZ80_1AG0010980, gene-QOZ80_1AG0034490 ... gene-QOZ80_1BG0059520, gene-QOZ80_1BG0084650, gene-QOZ80_3AG0221680, gene-QOZ80_3BG0266930, gene-QOZ80_UnG0727780
Poaceae	Hordeum vulgare	3	HORVU.MOREX.r3.3HG0291410.1.CDS1 ... HORVU.MOREX.r3.4HG0334180.1.CDS1, HORVU.MOREX.r3.5HG0420680.1.CDS1
Poaceae	Lolium multiflorum	4	gene-QYE76_000179, gene-QYE76_046888, gene-QYE76_063044 ... gene-QYE76_063090
Poaceae	Oryza coarctata	6	Oco01G021140, Oco02G021750, Oco05G020150, Oco06G020920 ... Oco23G011250, Oco24G011050
Poaceae	Oryza sativa	3	LOC_Os01g56070.3, LOC_Os03g47500.2, LOC_Os12g43930.1
Poaceae	Paspalum vaginatum	3	gene-BS78_01G126600, gene-BS78_03G287700 ... gene-BS78_08G168400
Poaceae	Puccinellia tenuiflora	1	Pt_Chr0704726
Poaceae	Sporobolus alterniflorus	10	Chr01G008330, Chr02G008710, Chr04G019960, Chr04G025810 ... Chr05G024790, Chr06G020900, Chr07G024710, Chr12G028850, Chr19G007020, Chr27G009880
Poaceae	Thinopyrum elongatum	3	Tel3E01G486800, Tel4E01G047500, Tel5E01G021900
Poaceae	Triticum dicoccoides	5	gene_TRIDC3BG050500, gene_TRIDC4AG044740 ... gene_TRIDC4BG004090, gene_TRIDC5AG001660, gene_TRIDC5BG001450
Poaceae	Triticum aestivum	8	TraesCS3B02G336200.1.cds1, TraesCS3D02G301500.1.cds1 ... TraesCS4A02G290600.1.cds1, TraesCS4B02G023600.1.cds1, TraesCS4D02G021200.1.cds1, TraesCS5A02G010000.1.cds1, TraesCS5B02G007600.1.cds1, TraesCS5D02G014800.1.cds1
Poaceae	Zea mays	5	Zm00001eb032800_P001, Zm00001eb051980_P001 ... Zm00001eb152120_P003, Zm00001eb217370_P001, Zm00001eb370210_P001
Poaceae	Zoysia japonica	3	nbis-gene-14646, nbis-gene-15747, nbis-gene-47419
Poaceae	Zoysia macrostachya	4	Zma_g26201, Zma_g3068, Zma_g760, Zma_g8731
Portulacaceae	Portulaca oleracea	7	evm.TU.LG03.1403, evm.TU.LG03.2073, evm.TU.LG12.48 ... evm.TU.LG14.1448, evm.TU.LG18.750, evm.TU.LG21.806, evm.TU.LG26.282
Posidoniaceae	Posidonia oceanica	3	gene.Posoc02g25590, gene.Posoc03g28000, gene.Posoc06g18880
Rhizophoraceae	Bruguiera sexangula	3	evm.TU.Scaffold_3_RagTag.280, evm.TU.Scaffold_6_RagTag.1969 ... evm.TU.Scaffold_8_RagTag.1061
Rhizophoraceae	Carallia pectinifolia	4	nbisL1-mrna-17161, nbisL1-mrna-344, nbisL1-mrna-530 ... nbisL1-mrna-8992
Rhizophoraceae	Ceriops tagal	3	nbisL1-mrna-10318, nbisL1-mrna-11427, nbisL1-mrna-21167
Rhizophoraceae	Ceriops zippeliana	3	nbisL1-mrna-11826, nbisL1-mrna-15420, nbisL1-mrna-6014
Rhizophoraceae	Kandelia candel	3	add.evm.TU.utg000011l.501, add.evm.TU.utg000018l.145 ... evm.TU.utg000019l.1071
Rhizophoraceae	Kandelia obovata	2	Maker00002949, Maker00007850
Rhizophoraceae	Rhizophora apiculata	3	nbisL1-mrna-17917, nbisL1-mrna-19358, nbisL1-mrna-23029
Rhizophoraceae	Rhizophora mangle	3	nbisL1-mrna-20250, nbisL1-mrna-2297, nbisL1-mrna-3130
Salicaceae	Populus euphratica	4	populus_peu14263, populus_peu14295, populus_peu23517 ... populus_peu31921
Solanaceae	Lycium barbarum	6	gene-LOC132599144, gene-LOC132599678, gene-LOC132606558 ... gene-LOC132612859, gene-LOC132622507, gene-LOC132622874
Solanaceae	Solanum chilense	4	SOLCI000141900, SOLCI000495300, SOLCI002409200 ... SOLCI003001800
Solanaceae	Solanum pennellii	4	gene-LOC107008836, gene-LOC107009098, gene-LOC107010374 ... gene-LOC107032070
Tamaricaceae	Reaumuria soongarica	2	STRG.31581_chr11_-, STRG.8801_chr03_+
Tamaricaceae	Tamarix chinensis	2	TC04G2303, TC11G0537
Zosteraceae	Zostera marina	1	Zosma05g23090.v3.1