halophFGD

Basic Information

Locus ID: Ag9G01270

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: Ubiquitin receptor

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr9	143996220	144002679	-	Ag9G01270

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
4.78	41,949.57 Da	48.12	78.13	-0.36

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd01805	Ubl_Rad23	1	74	8.71978E-32	-
Pfam	PF00240	Ubiquitin family	3	76	8.5E-19	IPR000626
Pfam	PF00627	UBA/TS-N domain	347	382	7.3E-10	IPR015940
Pfam	PF00627	UBA/TS-N domain	158	195	7.4E-11	IPR015940
Pfam	PF09280	XPC-binding domain	266	321	3.1E-23	IPR015360
SUPERFAMILY	SSF46934	UBA-like	154	204	4.2E-11	IPR009060
SUPERFAMILY	SSF54236	Ubiquitin-like	1	91	2.48E-23	IPR029071
SUPERFAMILY	SSF46934	UBA-like	327	389	5.8E-14	IPR009060
SUPERFAMILY	SSF101238	XPC-binding domain	263	328	3.14E-22	IPR036353
Gene3D	G3DSA:1.10.10.540	-	257	322	1.7E-26	IPR036353
Gene3D	G3DSA:3.10.20.90	-	1	77	8.0E-28	-
Gene3D	G3DSA:1.10.8.10	-	150	200	9.9E-21	-
Gene3D	G3DSA:1.10.8.10	-	339	386	5.9E-21	-
SMART	SM00165	uba_6	157	197	0.076	IPR015940
SMART	SM00165	uba_6	347	384	2.1E-7	IPR015940
SMART	SM00213	ubq_7	1	75	9.7E-21	IPR000626
SMART	SM00727	CBM	264	307	5.3E-8	IPR006636
TIGRFAM	TIGR00601	rad23: UV excision repair protein Rad23	1	390	2.4E-113	IPR004806
ProSiteProfiles	PS50030	Ubiquitin-associated domain (UBA) profile.	158	198	11.366136	IPR015940
ProSiteProfiles	PS50053	Ubiquitin domain profile.	1	79	19.455528	IPR000626
ProSiteProfiles	PS50030	Ubiquitin-associated domain (UBA) profile.	344	385	14.450564	IPR015940
PRINTS	PR01839	DNA repair protein Rad23 signature	358	372	9.7E-32	IPR004806
PRINTS	PR01839	DNA repair protein Rad23 signature	341	357	9.7E-32	IPR004806
PRINTS	PR01839	DNA repair protein Rad23 signature	292	314	9.7E-32	IPR004806
PRINTS	PR01839	DNA repair protein Rad23 signature	373	388	9.7E-32	IPR004806
MobiDBLite	mobidb-lite	consensus disorder prediction	80	142	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	212	237	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	80	134	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	219	237	-	-

Gene Ontology

Biological Process:

GO:0006289 (nucleotide-excision repair) GO:0043161 (proteasome-mediated ubiquitin-dependent protein catabolic process)

Molecular Function:

GO:0003684 (damaged DNA binding) GO:0005515 (protein binding)

KEGG Pathway

KO Term:

K10839 (UV excision repair protein RAD23)

Pathway:

ko03420 (Nucleotide excision repair) map03420 (Nucleotide excision repair) ko04141 (Protein processing in endoplasmic reticulum) map04141 (Protein processing in endoplasmic reticulum)

Best hit

Source	Best Hit ID	Description
TAIR	AT5G38470.1	Rad23 UV excision repair protein family. Encodes a member of the RADIATION SENSITIVE23 (RAD23) family: AT1G16190(RAD23A), AT1G79650(RAD23B), AT3G02540(RAD23C), AT5G38470(RAD23D). RAD23 proteins play an essential role in the cell cycle, morphology, and fertility of plants through their delivery of UPS (ubiquitin/26S proteasome system) substrates to the 26S proteasome.
RefSeq	XP_017257997.1	PREDICTED: ubiquitin receptor RAD23d-like isoform X2 [Daucus carota subsp. sativus]
Swiss-Prot	Q84L30	Ubiquitin receptor RAD23d OS=Arabidopsis thaliana OX=3702 GN=RAD23D PE=1 SV=2
TrEMBL	A0A164Y4D9	Ubiquitin receptor RAD23 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_017203 PE=3 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	85.462563	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	80.546555	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	132.451843	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	110.059189	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	109.097809	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	146.508698	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	101.934486	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	167.392334	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	99.222908	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	100.870361	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	102.858017	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	117.052788	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	100.149147	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	101.829727	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	66.13192	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	78.550804	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	74.570145	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	85.034492	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	71.841476	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	63.076847	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	77.915581	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	66.753113	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	67.899696	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	78.410538	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	71.276222	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	81.612007	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	80.776123	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	61.008583	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	73.414543	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	44.63483		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	37.24791		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	35.076347		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	78.288826		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	67.493095		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	89.089256		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	38.124874		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	43.944775		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	43.812588		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	65.812019	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	45.176506	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	33.429111	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	50.993496	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	93.819939	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	98.219269	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	97.959824	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	60.285191	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	89.524483	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	84.973244	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	88.817574	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	71.28598	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	jg18362, jg27118, jg34928, jg5278, jg7238
Aizoaceae	Mesembryanthemum crystallinum	3	gene_11211, gene_16602, gene_4001
Amaranthaceae	Atriplex hortensis	5	Ah003099, Ah020036, Ah025489, Ah025848, Ah035469
Amaranthaceae	Beta vulgaris	2	BVRB_2g026730, BVRB_6g142060
Amaranthaceae	Salicornia bigelovii	6	Sbi_jg13820, Sbi_jg21888, Sbi_jg29536, Sbi_jg38161 ... Sbi_jg52099, Sbi_jg6282
Amaranthaceae	Salicornia europaea	3	Seu_jg15568, Seu_jg15861, Seu_jg9742
Amaranthaceae	Suaeda aralocaspica	3	GOSA_00003614, GOSA_00008487, GOSA_00018864
Amaranthaceae	Suaeda glauca	7	Sgl01566, Sgl06737, Sgl12782, Sgl39802, Sgl63153, Sgl63288 ... Sgl67767
Amaranthaceae	Chenopodium album	9	gene:ENSEOMG00000000358, gene:ENSEOMG00000002653 ... gene:ENSEOMG00000015663, gene:ENSEOMG00000017688, gene:ENSEOMG00000018162, gene:ENSEOMG00000024105, gene:ENSEOMG00000032384, gene:ENSEOMG00000045532, gene:ENSEOMG00000051709
Amaranthaceae	Chenopodium quinoa	6	CQ.Regalona.r1.2AG0019400, CQ.Regalona.r1.2BG0021140 ... CQ.Regalona.r1.3AG0013180, CQ.Regalona.r1.3BG0013150, CQ.Regalona.r1.6BG0015490, CQ.Regalona.r1.6BG0015510
Anacardiaceae	Pistacia vera	3	pistato.v30130740, pistato.v30191580, pistato.v30225470
Apiaceae	Apium graveolens	6	Ag4G00059, Ag4G00520, Ag5G02033, Ag8G02054, Ag9G01270 ... AgUnG00148
Arecaceae	Cocos nucifera	3	COCNU_02G005180, COCNU_03G010170, COCNU_11G012340
Arecaceae	Phoenix dactylifera	4	gene-LOC103695556, gene-LOC103701057, gene-LOC103710457 ... gene-LOC103715340
Asparagaceae	Asparagus officinalis	6	AsparagusV1_01.27.V1.1, AsparagusV1_05.2574.V1.1 ... AsparagusV1_05.3432.V1.1, AsparagusV1_06.494.V1.1, AsparagusV1_07.3580.V1.1, AsparagusV1_Unassigned.916.V1.1
Asteraceae	Flaveria trinervia	5	Ftri11G16779, Ftri13G17454, Ftri18G15652, Ftri18G15771 ... Ftri1G10187
Brassicaceae	Arabidopsis thaliana	5	AT1G16190.1, AT1G79650.4, AT3G02540.1, AT5G16090.1 ... AT5G38470.1
Brassicaceae	Eutrema salsugineum	5	Thhalv10007982m.g.v1.0, Thhalv10016009m.g.v1.0 ... Thhalv10018655m.g.v1.0, Thhalv10020817m.g.v1.0, Thhalv10027790m.g.v1.0
Brassicaceae	Schrenkiella parvula	4	Sp1g14430.v2.2, Sp3g01570.v2.2, Sp5g34720.v2.2 ... Sp7g03580.v2.2
Brassicaceae	Brassica nigra	7	BniB01g029150.2N, BniB02g046670.2N, BniB03g026820.2N ... BniB06g041540.2N, BniB06g051030.2N, BniB06g060440.2N, BniB07g061270.2N
Casuarinaceae	Casuarina equisetifolia	3	Ceq03G2061, Ceq05G0646, Ceq08G0755
Casuarinaceae	Casuarina glauca	4	Cgl03G2177, Cgl03G2200, Cgl05G0660, Cgl08G0752
Cymodoceaceae	Cymodocea nodosa	2	gene.Cymno06g07310, gene.Cymno11g08440
Dunaliellaceae	Dunaliella salina	1	Dusal.0083s00005.v1.0
Hydrocharitaceae	Thalassia testudinum	2	gene.Thate04g10510, gene.Thate05g24310
Malvaceae	Hibiscus hamabo Siebold & Zucc.	5	nbisL1-mrna-11621, nbisL1-mrna-3366, nbisL1-mrna-4657 ... nbisL1-mrna-7501, nbisL1-mrna-7505
Nitrariaceae	Nitraria sibirica	3	evm.TU.LG01.705, evm.TU.LG02.445, evm.TU.LG03.537
Plantaginaceae	Plantago ovata	5	Pov_00001129, Pov_00013955, Pov_00020088, Pov_00028293 ... Pov_00033190
Plumbaginaceae	Limonium bicolor	2	Lb0G37512, Lb1G01914
Poaceae	Echinochloa crus-galli	12	AH03.1867, AH06.1088, AH07.576, AH08.1616, BH03.2048 ... BH06.1121, BH07.703, BH08.1665, CH03.2219, CH06.1232, CH07.583, CH08.1811
Poaceae	Eleusine coracana subsp. coracana	6	gene-QOZ80_2AG0103690, gene-QOZ80_2BG0157010 ... gene-QOZ80_6AG0516470, gene-QOZ80_6AG0534750, gene-QOZ80_6BG0468090, gene-QOZ80_6BG0487930
Poaceae	Hordeum vulgare	4	HORVU.MOREX.r3.5HG0479410.1, HORVU.MOREX.r3.6HG0569490.1 ... HORVU.MOREX.r3.6HG0569510.1, HORVU.MOREX.r3.7HG0670490.1
Poaceae	Lolium multiflorum	4	gene-QYE76_005008, gene-QYE76_021029, gene-QYE76_029299 ... gene-QYE76_031461
Poaceae	Oryza coarctata	7	Oco03G004010, Oco04G003960, Oco11G006910, Oco12G007050 ... Oco15G008820, Oco16G008300, Oco18G004490
Poaceae	Oryza sativa	5	LOC_Os02g08300.1, LOC_Os06g15360.1, LOC_Os08g21630.1 ... LOC_Os08g33340.1, LOC_Os09g24200.1
Poaceae	Paspalum vaginatum	3	gene-BS78_02G178700, gene-BS78_04G059500 ... gene-BS78_10G108500
Poaceae	Puccinellia tenuiflora	5	Pt_Chr0106552, Pt_Chr0202331, Pt_Chr0403619, Pt_Chr0404491 ... Pt_Chr0702261
Poaceae	Sporobolus alterniflorus	10	Chr10G010390, Chr11G018260, Chr14G005250, Chr14G013570 ... Chr15G025270, Chr17G013720, Chr20G005720, Chr21G004710, Chr21G012740, Chr29G005530
Poaceae	Thinopyrum elongatum	6	Tel3E01G607300, Tel5E01G339900, Tel6E01G308900 ... Tel7E01G097600, Tel7E01G098200, Tel7E01G376700
Poaceae	Triticum dicoccoides	6	gene_TRIDC5AG032940, gene_TRIDC5BG034970 ... gene_TRIDC6AG020610, gene_TRIDC6BG026520, gene_TRIDC7AG026000, gene_TRIDC7BG016580
Poaceae	Triticum aestivum	9	TraesCS5A02G204200.1, TraesCS5B02G204000.1 ... TraesCS5D02G211900.1, TraesCS6A02G149500.1, TraesCS6B02G177400.1, TraesCS6D02G138800.2, TraesCS7A02G206300.1, TraesCS7B02G113500.1, TraesCS7D02G209100.1
Poaceae	Zea mays	5	Zm00001eb099280_P001, Zm00001eb206650_P005 ... Zm00001eb280580_P001, Zm00001eb312260_P002, Zm00001eb379990_P002
Poaceae	Zoysia japonica	6	nbis-gene-16976, nbis-gene-20000, nbis-gene-30880 ... nbis-gene-44185, nbis-gene-45531, nbis-gene-50347
Poaceae	Zoysia macrostachya	6	Zma_g15058, Zma_g24090, Zma_g29469, Zma_g30289, Zma_g31714 ... Zma_g32440
Portulacaceae	Portulaca oleracea	8	evm.TU.LG04.2613, evm.TU.LG05.812, evm.TU.LG06.873 ... evm.TU.LG08.193, evm.TU.LG11.194, evm.TU.LG13.657, evm.TU.LG21.344, evm.TU.LG25.514
Posidoniaceae	Posidonia oceanica	2	gene.Posoc03g13630, gene.Posoc08g00620
Rhizophoraceae	Bruguiera sexangula	4	evm.TU.Scaffold_11_RagTag.140, evm.TU.Scaffold_15_RagTag.86 ... evm.TU.Scaffold_17_RagTag.917, evm.TU.Scaffold_6_RagTag.488
Rhizophoraceae	Carallia pectinifolia	3	nbisL1-mrna-15398, nbisL1-mrna-23643, nbisL1-mrna-7232
Rhizophoraceae	Ceriops tagal	3	nbisL1-mrna-2363, nbisL1-mrna-2972, nbisL1-mrna-7259
Rhizophoraceae	Ceriops zippeliana	4	nbisL1-mrna-12213, nbisL1-mrna-14445, nbisL1-mrna-17429 ... nbisL1-mrna-21945
Rhizophoraceae	Kandelia candel	4	evm.TU.utg000001l.49, evm.TU.utg000005l.305 ... evm.TU.utg000011l.267, evm.TU.utg000013l.512
Rhizophoraceae	Kandelia obovata	4	Maker00004353, Maker00004558, Maker00007822, Maker00010063
Rhizophoraceae	Rhizophora apiculata	4	nbisL1-mrna-10904, nbisL1-mrna-11673, nbisL1-mrna-22307 ... nbisL1-mrna-287
Rhizophoraceae	Rhizophora mangle	3	nbisL1-mrna-21992, nbisL1-mrna-23141, nbisL1-mrna-2842
Salicaceae	Populus euphratica	5	populus_peu04151, populus_peu07056, populus_peu09531 ... populus_peu25002, populus_peu34977
Solanaceae	Lycium barbarum	4	gene-LOC132612614, gene-LOC132621063, gene-LOC132621665 ... gene-LOC132633105
Solanaceae	Solanum chilense	4	SOLCI002172800, SOLCI002423500, SOLCI002788500 ... SOLCI004288900
Solanaceae	Solanum pennellii	4	gene-LOC107011483, gene-LOC107012025, gene-LOC107015500 ... gene-LOC107017999
Tamaricaceae	Reaumuria soongarica	3	STRG.16771_chr08_+, gene_15901, gene_9857
Tamaricaceae	Tamarix chinensis	4	TC01G2166, TC05G1233, TC08G0652, TC09G1674
Zosteraceae	Zostera marina	2	Zosma01g09920.v3.1, Zosma05g17390.v3.1