halophFGD

Basic Information

Locus ID: Ag8G02054

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: Ubiquitin receptor

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr8	261848598	261855601	-	Ag8G02054

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
4.64	41,662.51 Da	59.89	84.42	-0.20

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd14379	UBA1_Rad23_plant	166	215	6.74383E-30	-
CDD	cd01805	Ubl_Rad23	1	74	1.04401E-30	-
Pfam	PF00627	UBA/TS-N domain	352	388	3.6E-12	IPR015940
Pfam	PF00240	Ubiquitin family	3	76	1.8E-20	IPR000626
Pfam	PF09280	XPC-binding domain	278	333	1.6E-22	IPR015360
Pfam	PF00627	UBA/TS-N domain	175	210	1.6E-13	IPR015940
SUPERFAMILY	SSF101238	XPC-binding domain	274	339	4.05E-22	IPR036353
SUPERFAMILY	SSF54236	Ubiquitin-like	1	79	1.36E-21	IPR029071
SUPERFAMILY	SSF46934	UBA-like	327	395	4.7E-16	IPR009060
SUPERFAMILY	SSF46934	UBA-like	158	216	1.83E-11	IPR009060
Gene3D	G3DSA:3.10.20.90	-	1	80	2.5E-28	-
Gene3D	G3DSA:1.10.10.540	-	268	334	2.3E-27	IPR036353
Gene3D	G3DSA:1.10.8.10	-	165	215	5.7E-22	-
Gene3D	G3DSA:1.10.8.10	-	344	392	2.7E-23	-
SMART	SM00727	CBM	276	319	4.9E-7	IPR006636
SMART	SM00165	uba_6	353	390	4.0E-9	IPR015940
SMART	SM00213	ubq_7	1	75	1.7E-20	IPR000626
SMART	SM00165	uba_6	172	212	2.2E-4	IPR015940
TIGRFAM	TIGR00601	rad23: UV excision repair protein Rad23	1	396	1.0E-113	IPR004806
ProSiteProfiles	PS50030	Ubiquitin-associated domain (UBA) profile.	350	391	15.245769	IPR015940
ProSiteProfiles	PS50030	Ubiquitin-associated domain (UBA) profile.	170	213	12.426409	IPR015940
ProSiteProfiles	PS50053	Ubiquitin domain profile.	1	79	19.629732	IPR000626
PRINTS	PR01839	DNA repair protein Rad23 signature	304	326	6.0E-34	IPR004806
PRINTS	PR01839	DNA repair protein Rad23 signature	379	394	6.0E-34	IPR004806
PRINTS	PR01839	DNA repair protein Rad23 signature	347	363	6.0E-34	IPR004806
PRINTS	PR01839	DNA repair protein Rad23 signature	364	378	6.0E-34	IPR004806
MobiDBLite	mobidb-lite	consensus disorder prediction	218	242	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	220	234	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	81	121	-	-

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	AT3G02540.1	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_017223260.1	PREDICTED: ubiquitin receptor RAD23d-like [Daucus carota subsp. sativus]
Swiss-Prot	Q84L31	Ubiquitin receptor RAD23c OS=Arabidopsis thaliana OX=3702 GN=RAD23C PE=1 SV=2
TrEMBL	A0A175YQF2	Ubiquitin receptor RAD23 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_026729 PE=3 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	151.811096	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	180.778793	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	136.45961	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	135.359024	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	138.171646	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	117.351624	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	115.539436	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	90.848747	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	138.370209	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	142.077438	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	141.734833	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	150.767639	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	140.996109	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	163.320404	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	133.133408	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	134.380493	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	132.989197	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	143.621017	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	122.497108	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	168.163666	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	165.196548	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	179.596191	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	201.082687	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	194.251221	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	157.79184	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	138.779846	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	136.37233	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	126.209351	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	139.91925	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	126.743576		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	117.483086		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	113.904671		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	186.794647		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	146.020264		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	230.246216		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	154.252228		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	113.733894		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	130.608765		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	94.161758	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	84.429512	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	55.734169	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	312.091217	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	309.812225	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	172.194962	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	156.540649	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	330.042114	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	155.084045	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	185.302231	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	169.737427	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	149.845917	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