halophFGD

Basic Information

Locus ID: Ag2G00298

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: zinc-RING finger domain

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr2	5915236	5916964	+	Ag2G00298

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
6.78	24,744.75 Da	56.46	67.14	-0.07

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd16745	RING-HC_AtRMA_like	30	74	1.74558E-30	-
Pfam	PF13923	Zinc finger, C3HC4 type (RING finger)	31	72	5.9E-9	-
SUPERFAMILY	SSF57850	RING/U-box	21	82	3.35E-17	-
Gene3D	G3DSA:3.30.40.10	Zinc/RING finger domain, C3HC4 (zinc finger)	13	93	1.3E-17	IPR013083
SMART	SM00184	ring_2	32	72	7.5E-8	IPR001841
ProSiteProfiles	PS50089	Zinc finger RING-type profile.	32	73	13.403964	IPR001841
ProSitePatterns	PS00518	Zinc finger RING-type signature.	47	56	-	IPR017907
MobiDBLite	mobidb-lite	consensus disorder prediction	86	117	-	-

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	AT1G19310.1	RING/U-box superfamily protein.
RefSeq	XP_017254994.1	PREDICTED: E3 ubiquitin-protein ligase RNF185-like [Daucus carota subsp. sativus]
Swiss-Prot	Q09463	E3 ubiquitin ligase rnf-5 OS=Caenorhabditis elegans OX=6239 GN=rnf-5 PE=1 SV=1
TrEMBL	A0A161ZT13	RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_021733 PE=4 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	11.478746	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	14.835563	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	15.56192	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	13.654782	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	13.350404	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	16.030937	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	15.648752	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	17.943087	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	31.394958	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	30.966164	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	28.727308	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	27.825796	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	22.235743	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	25.630209	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	27.725742	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	34.446274	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	29.71162	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	24.669142	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	24.351473	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	45.908607	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	35.089813	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	41.523613	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	41.42178	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	33.35363	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	38.063362	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	25.139656	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	23.88273	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	24.069939	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	26.134817	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	23.755228		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	19.085644		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	18.056797		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	33.084854		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	30.633755		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	27.344589		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	36.423714		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	38.933949		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	43.182957		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	20.749771	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	18.241478	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	13.039964	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	68.986755	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	91.442085	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	64.358696	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	69.20755	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	59.582397	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	53.508057	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	40.458828	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	42.006481	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	35.525639	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