halophFGD

Basic Information

Locus ID: Ag3G02527

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
chr3	280354738	280362077	-	Ag3G02527

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
5.68	164,257.25 Da	42.98	88.67	-0.27

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd16664	RING-Ubox_PUB	504	546	2.67616E-18	-
Pfam	PF00400	WD domain, G-beta repeat	1229	1263	0.0013	IPR001680
Pfam	PF04564	U-box domain	500	571	2.3E-14	IPR003613
Pfam	PF00400	WD domain, G-beta repeat	1446	1473	0.11	IPR001680
SUPERFAMILY	SSF50978	WD40 repeat-like	1205	1475	1.34E-27	IPR036322
SUPERFAMILY	SSF48371	ARM repeat	797	1140	1.7E-10	IPR016024
SUPERFAMILY	SSF57850	RING/U-box	497	572	2.21E-22	-
Gene3D	G3DSA:2.130.10.10	-	1197	1318	6.6E-14	IPR015943
Gene3D	G3DSA:3.30.40.10	Zinc/RING finger domain, C3HC4 (zinc finger)	486	581	9.2E-23	IPR013083
Gene3D	G3DSA:2.130.10.10	-	1319	1476	3.3E-10	IPR015943
Gene3D	G3DSA:1.25.10.10	-	639	1014	4.7E-10	IPR011989
SMART	SM00320	WD40_4	1432	1474	0.19	IPR001680
SMART	SM00320	WD40_4	1225	1264	3.7E-5	IPR001680
SMART	SM00504	Ubox_2	503	567	1.6E-23	IPR003613
SMART	SM00320	WD40_4	1186	1220	18.0	IPR001680
ProSiteProfiles	PS50294	Trp-Asp (WD) repeats circular profile.	1442	1476	9.783781	-
ProSiteProfiles	PS51698	U-box domain profile.	499	574	31.404001	IPR003613
ProSiteProfiles	PS50082	Trp-Asp (WD) repeats profile.	1442	1476	10.040596	IPR001680
ProSiteProfiles	PS50294	Trp-Asp (WD) repeats circular profile.	1232	1266	9.493783	-
ProSiteProfiles	PS50082	Trp-Asp (WD) repeats profile.	1232	1266	11.343905	IPR001680
MobiDBLite	mobidb-lite	consensus disorder prediction	428	462	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	607	622	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	311	340	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	368	409	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	577	606	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	429	445	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	325	340	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	577	622	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	388	409	-	-

Gene Ontology

Biological Process:

GO:0016567 (protein ubiquitination)

Molecular Function:

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

Best hit

Source	Best Hit ID	Description
TAIR	AT1G49780.1	plant U-box 26.
RefSeq	XP_017245727.1	PREDICTED: putative E3 ubiquitin-protein ligase LIN-1 [Daucus carota subsp. sativus]
Swiss-Prot	C6L7U1	Putative E3 ubiquitin-protein ligase LIN-1 OS=Lotus japonicus OX=34305 GN=CERBERUS PE=2 SV=2
TrEMBL	A0A165Y2D3	RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_013871 PE=4 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	3.898743	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	2.310845	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	0.821027	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	0.745891	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	1.167922	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	0.579251	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	0.868981	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	0.4652	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	0.591979	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	0.408082	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	0.425907	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	0.641183	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	0.729784	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	0.593512	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	0	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	0	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	0	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	0	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	0	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	0	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	0	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	0.094183	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	0.0134	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	0.216445	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	0.080987	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	0.015844	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	0.017271	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	0.024622	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	0.054922	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	0.013422		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	0.068794		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	0.010806		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	0.073538		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	0.08631		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	0.040321		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	0.033766		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	0		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	0.06939		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	0.28909	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	0.152961	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	0.088007	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	0	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	0.074566	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	0.07779	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	0.076323	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	0.031444	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	0.118549	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	0.588919	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	0.646205	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	0.495469	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	6	jg11768, jg11769, jg11770, jg11771, jg31633, jg31634
Anacardiaceae	Pistacia vera	2	pistato.v30049320, pistato.v30256780
Apiaceae	Apium graveolens	3	Ag2G02459, Ag3G02527, Ag8G00225
Arecaceae	Cocos nucifera	2	COCNU_03G011900, COCNU_07G002000
Arecaceae	Phoenix dactylifera	2	gene-LOC103702597, gene-LOC103706139
Asparagaceae	Asparagus officinalis	3	AsparagusV1_01.1751.V1.1, AsparagusV1_03.2268.V1.1 ... AsparagusV1_04.824.V1.1
Asteraceae	Flaveria trinervia	3	Ftri4G07535, Ftri7G18227, Ftri8G01620
Casuarinaceae	Casuarina equisetifolia	2	Ceq03G0877, Ceq06G1516
Casuarinaceae	Casuarina glauca	2	Cgl03G0956, Cgl06G1574
Malvaceae	Hibiscus hamabo Siebold & Zucc.	2	nbisL1-mrna-141, nbisL1-mrna-8648
Nitrariaceae	Nitraria sibirica	2	evm.TU.LG06.710, evm.TU.LG07.1111
Plantaginaceae	Plantago ovata	2	Pov_00003863, Pov_00020671
Poaceae	Echinochloa crus-galli	4	AH02.91, BH01.509, BH02.80, CH02.102
Poaceae	Eleusine coracana subsp. coracana	2	gene-QOZ80_1AG0000840, gene-QOZ80_1BG0049330
Poaceae	Hordeum vulgare	1	HORVU.MOREX.r3.3HG0248980.1
Poaceae	Lolium multiflorum	3	gene-QYE76_051444, gene-QYE76_051560, gene-QYE76_051566
Poaceae	Oryza coarctata	2	Oco01G005770, Oco02G005870
Poaceae	Oryza sativa	1	LOC_Os01g12930.1
Poaceae	Paspalum vaginatum	1	gene-BS78_03G006500
Poaceae	Puccinellia tenuiflora	1	Pt_Chr0204871
Poaceae	Sporobolus alterniflorus	1	Chr21G016220
Poaceae	Thinopyrum elongatum	1	Tel3E01G274000
Poaceae	Triticum dicoccoides	2	gene_TRIDC3AG020830, gene_TRIDC3BG031130
Poaceae	Triticum aestivum	3	TraesCS3A02G154900.1, TraesCS3B02G181200.1 ... TraesCS3D02G162400.1
Poaceae	Zea mays	1	Zm00001eb119290_P001
Poaceae	Zoysia japonica	5	nbis-gene-24273, nbis-gene-24274, nbis-gene-32721 ... nbis-gene-32722, nbis-gene-32723
Poaceae	Zoysia macrostachya	2	Zma_g7183, Zma_g9505
Rhizophoraceae	Bruguiera sexangula	3	evm.TU.Scaffold_10_RagTag.437, evm.TU.Scaffold_4_RagTag.1931 ... evm.TU.Scaffold_7_RagTag.428
Rhizophoraceae	Carallia pectinifolia	3	nbisL1-mrna-13099, nbisL1-mrna-16388, nbisL1-mrna-25645
Rhizophoraceae	Ceriops tagal	2	nbisL1-mrna-12295, nbisL1-mrna-6585
Rhizophoraceae	Ceriops zippeliana	4	nbisL1-mrna-13044, nbisL1-mrna-13045, nbisL1-mrna-16830 ... nbisL1-mrna-16831
Rhizophoraceae	Kandelia candel	4	add.evm.TU.utg000018l.158, add.evm.TU.utg000033l.95 ... evm.TU.utg000002l.484, evm.TU.utg000008l.1103
Rhizophoraceae	Kandelia obovata	3	Maker00000143, Maker00011993, Maker00014879
Rhizophoraceae	Rhizophora apiculata	2	nbisL1-mrna-20232, nbisL1-mrna-23194
Salicaceae	Populus euphratica	5	populus_peu15357, populus_peu21947, populus_peu33000 ... populus_peu33001, populus_peu33002
Solanaceae	Lycium barbarum	2	gene-LOC132603413, gene-LOC132622109
Solanaceae	Solanum pennellii	3	gene-LOC107017250, gene-LOC107025502, gene-LOC114077896