halophFGD

Basic Information

Locus ID: Ag6G01121

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: Belongs to the cullin family

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr6	50999500	51008941	+	Ag6G01121

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
8.19	93,387.16 Da	46.29	84.85	-0.43

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
Pfam	PF10557	Cullin protein neddylation domain	747	807	1.8E-22	IPR019559
Pfam	PF00888	Cullin family	119	716	1.8E-206	IPR001373
SUPERFAMILY	SSF74788	Cullin repeat-like	113	455	1.2E-108	IPR016159
SUPERFAMILY	SSF46785	Winged helix DNA-binding domain	727	815	1.31E-26	IPR036390
SUPERFAMILY	SSF75632	Cullin homology domain	456	726	1.57E-100	IPR036317
Gene3D	G3DSA:3.30.230.130	Cullin; Chain C, Domain 2	574	730	1.5E-54	-
Gene3D	G3DSA:1.20.1310.10	Cullin Repeats	355	457	4.1E-29	-
Gene3D	G3DSA:1.20.1310.10	Cullin Repeats	240	354	2.0E-34	-
Gene3D	G3DSA:1.20.1310.10	Cullin Repeats	106	237	2.4E-40	-
Gene3D	G3DSA:1.20.1310.10	Cullin Repeats	458	569	4.4E-48	-
Gene3D	G3DSA:1.10.10.10	-	742	815	4.5E-31	IPR036388
SMART	SM00884	Cullin_Nedd8_2	744	809	3.1E-34	IPR019559
SMART	SM00182	cul_2	489	638	3.4E-75	IPR016158
ProSiteProfiles	PS50069	Cullin family profile.	459	688	59.348919	IPR016158
ProSitePatterns	PS01256	Cullin family signature.	788	815	-	IPR016157
MobiDBLite	mobidb-lite	consensus disorder prediction	1	33	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	1	30	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	75	94	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	75	89	-	-

Gene Ontology

Biological Process:

GO:0006511 (ubiquitin-dependent protein catabolic process)

Molecular Function:

GO:0031625 (ubiquitin protein ligase binding)

Cellular Component:

GO:0031461 (cullin-RING ubiquitin ligase complex)

KEGG Pathway

KO Term:

K10609 (cullin 4)

Pathway:

ko03420 (Nucleotide excision repair) map03420 (Nucleotide excision repair) ko04120 (Ubiquitin mediated proteolysis) map04120 (Ubiquitin mediated proteolysis)

Best hit

Source	Best Hit ID	Description
TAIR	AT5G46210.1	cullin4. Arabidopsis CULLIN4 (CUL4) forms an E3 ubiquitin ligase with the CDD complex and a common catalytic subunit RBX1 in mediating light control of development. This CUL4-based E3 ligase is essential for the repression of photomorphogenesis. The partial loss of CUL4 function resulted in a constitutive photomorphogenic phenotype with respect to morphogenesis and light-regulated gene expression. CUL4 exhibits a synergistic genetic interaction with COP10 and DET1.
RefSeq	XP_017235141.1	PREDICTED: cullin-4 [Daucus carota subsp. sativus]
Swiss-Prot	Q8LGH4	Cullin-4 OS=Arabidopsis thaliana OX=3702 GN=CUL4 PE=1 SV=1
TrEMBL	A0A166EWA8	CULLIN_2 domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_007888 PE=3 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	110.676384	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	77.793282	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	83.64399	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	87.637383	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	91.544434	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	89.678352	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	97.933693	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	81.703171	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	69.377716	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	71.480484	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	70.17865	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	70.36586	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	62.857422	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	61.832401	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	31.28377	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	35.20694	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	30.305769	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	44.315399	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	38.151775	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	49.043743	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	50.430786	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	43.271397	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	45.53693	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	41.995438	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	41.908772	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	51.538662	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	42.479809	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	41.862434	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	44.859512	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	26.957457		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	27.547302		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	22.875137		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	40.568783		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	34.848534		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	38.618298		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	25.524326		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	22.58548		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	22.71027		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	38.719093	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	28.342924	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	24.675955	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	59.749577	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	62.40863	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	89.469124	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	82.009872	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	64.199402	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	65.548561	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	59.581245	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	59.190319	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	56.400967	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	2	jg25016, jg38756
Aizoaceae	Mesembryanthemum crystallinum	1	gene_22503
Amaranthaceae	Atriplex hortensis	1	Ah016502
Amaranthaceae	Salicornia bigelovii	2	Sbi_jg40625, Sbi_jg50645
Amaranthaceae	Salicornia europaea	1	Seu_jg2202
Amaranthaceae	Suaeda aralocaspica	1	GOSA_00016658
Amaranthaceae	Suaeda glauca	2	Sgl44929, Sgl49691
Amaranthaceae	Chenopodium album	3	gene:ENSEOMG00000011229, gene:ENSEOMG00000032891 ... gene:ENSEOMG00000045363
Amaranthaceae	Chenopodium quinoa	2	CQ.Regalona.r1.8AG0009330, CQ.Regalona.r1.8BG0010060
Anacardiaceae	Pistacia vera	1	pistato.v30069590
Apiaceae	Apium graveolens	1	Ag6G01121
Arecaceae	Cocos nucifera	2	COCNU_06G020020, COCNU_14G008550
Arecaceae	Phoenix dactylifera	1	gene-LOC103721243
Asparagaceae	Asparagus officinalis	3	AsparagusV1_06.1870.V1.1, AsparagusV1_07.3412.V1.1 ... AsparagusV1_07.3413.V1.1
Asteraceae	Flaveria trinervia	2	Ftri15G14032, Ftri18G00555
Brassicaceae	Arabidopsis thaliana	1	AT5G46210.1
Brassicaceae	Eutrema salsugineum	2	Thhalv10000782m.g.v1.0, Thhalv10024458m.g.v1.0
Brassicaceae	Schrenkiella parvula	2	Sp2g11070.v2.2, Sp7g15740.v2.2
Brassicaceae	Brassica nigra	2	BniB04g011130.2N, BniB04g015870.2N
Casuarinaceae	Casuarina equisetifolia	1	Ceq04G0272
Casuarinaceae	Casuarina glauca	1	Cgl04G0385
Cymodoceaceae	Cymodocea nodosa	1	gene.Cymno06g05650
Dunaliellaceae	Dunaliella salina	2	Dusal.1455s00001.v1.0, Dusal.1960s00001.v1.0
Hydrocharitaceae	Thalassia testudinum	1	gene.Thate03g22730
Malvaceae	Hibiscus hamabo Siebold & Zucc.	3	nbisL1-mrna-11750, nbisL1-mrna-4694, nbisL1-mrna-8114
Nitrariaceae	Nitraria sibirica	1	evm.TU.LG01.569
Plantaginaceae	Plantago ovata	3	Pov_00012363, Pov_00013134, Pov_00038486
Poaceae	Echinochloa crus-galli	3	AH01.139, BH03.3881, CH01.471
Poaceae	Eleusine coracana subsp. coracana	2	gene-QOZ80_3AG0213350, gene-QOZ80_3BG0258480
Poaceae	Hordeum vulgare	1	HORVU.MOREX.r3.5HG0516940.1
Poaceae	Lolium multiflorum	1	gene-QYE76_061385
Poaceae	Oryza coarctata	2	Oco05G025510, Oco06G026370
Poaceae	Oryza sativa	1	LOC_Os03g57290.1
Poaceae	Paspalum vaginatum	1	gene-BS78_01G057100
Poaceae	Puccinellia tenuiflora	1	Pt_Chr0107028
Poaceae	Sporobolus alterniflorus	5	Chr01G003300, Chr04G030110, Chr07G029180, Chr12G035160 ... Chr12G035420
Poaceae	Thinopyrum elongatum	1	Tel5E01G666100
Poaceae	Triticum dicoccoides	2	gene_TRIDC5AG061530, gene_TRIDC5BG065610
Poaceae	Triticum aestivum	3	TraesCS5A02G425300.1, TraesCS5B02G427400.1 ... TraesCS5D02G433700.3
Poaceae	Zea mays	2	Zm00001eb059990_P001, Zm00001eb213380_P001
Poaceae	Zoysia japonica	3	nbis-gene-15283, nbis-gene-16412, nbis-gene-59064
Poaceae	Zoysia macrostachya	2	Zma_g2617, Zma_g335
Portulacaceae	Portulaca oleracea	2	evm.TU.LG01.804, evm.TU.LG23.206
Posidoniaceae	Posidonia oceanica	1	gene.Posoc03g16310
Rhizophoraceae	Bruguiera sexangula	2	evm.TU.Scaffold_14_RagTag.895, evm.TU.Scaffold_16_RagTag.817
Rhizophoraceae	Carallia pectinifolia	1	nbisL1-mrna-24987
Rhizophoraceae	Ceriops tagal	2	nbisL1-mrna-12972, nbisL1-mrna-3872
Rhizophoraceae	Ceriops zippeliana	2	nbisL1-mrna-17215, nbisL1-mrna-19195
Rhizophoraceae	Kandelia candel	1	evm.TU.utg000022l.81
Rhizophoraceae	Kandelia obovata	1	Maker00016174
Rhizophoraceae	Rhizophora apiculata	2	nbisL1-mrna-78, nbisL1-mrna-8671
Rhizophoraceae	Rhizophora mangle	2	nbisL1-mrna-10320, nbisL1-mrna-9118
Salicaceae	Populus euphratica	4	populus_peu09053, populus_peu09218, populus_peu09227 ... populus_peu17901
Solanaceae	Lycium barbarum	2	gene-LOC132621551, gene-LOC132640306
Solanaceae	Solanum chilense	1	SOLCI004625500
Solanaceae	Solanum pennellii	2	gene-LOC107011416, gene-LOC107011507
Tamaricaceae	Reaumuria soongarica	1	STRG.10641_chr07_+
Tamaricaceae	Tamarix chinensis	1	TC06G1043
Zosteraceae	Zostera marina	1	Zosma05g30190.v3.1