halophFGD

Basic Information

Locus ID: Ag3G00677

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: Ubiquitin carboxyl-terminal hydrolase

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr3	19369595	19377290	+	Ag3G00677

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
5.08	103,667.75 Da	41.73	85.36	-0.25

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd02674	Peptidase_C19R	757	908	2.26992E-59	-
Pfam	PF00443	Ubiquitin carboxyl-terminal hydrolase	307	907	8.6E-80	IPR001394
SUPERFAMILY	SSF54001	Cysteine proteinases	305	909	3.92E-107	IPR038765
Gene3D	G3DSA:3.90.70.10	Cysteine proteinases	291	526	1.4E-64	-
Gene3D	G3DSA:3.90.70.10	Cysteine proteinases	740	910	1.9E-55	-
ProSiteProfiles	PS50235	Ubiquitin specific protease (USP) domain profile.	307	910	55.667545	IPR028889
ProSitePatterns	PS00973	Ubiquitin specific protease (USP) domain signature 2.	853	870	-	IPR018200
ProSitePatterns	PS00972	Ubiquitin specific protease (USP) domain signature 1.	308	323	-	IPR018200

Gene Ontology

Biological Process:

GO:0006511 (ubiquitin-dependent protein catabolic process) GO:0016579 (protein deubiquitination)

Molecular Function:

GO:0004843 (cysteine-type deubiquitinase activity)

KEGG Pathway

KO Term:

K21343 (ubiquitin carboxyl-terminal hydrolase 15 [EC:3.4.19.12])

Pathway:

ko04137 (Mitophagy - animal) map04137 (Mitophagy - animal)

Best hit

Source	Best Hit ID	Description
TAIR	AT5G22030.1	ubiquitin-specific protease 8.
RefSeq	XP_017247841.1	PREDICTED: ubiquitin carboxyl-terminal hydrolase 8-like [Daucus carota subsp. sativus]
Swiss-Prot	Q9C585	Ubiquitin carboxyl-terminal hydrolase 8 OS=Arabidopsis thaliana OX=3702 GN=UBP8 PE=2 SV=2
TrEMBL	A0A165YSJ1	USP domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_013447 PE=3 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	11.897524	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	12.449816	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	11.453828	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	12.690253	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	13.719297	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	16.131546	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	16.652252	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	16.316687	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	15.055892	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	13.927537	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	12.685845	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	13.409219	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	12.841235	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	9.797091	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	4.433306	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	3.802974	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	4.626207	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	9.394939	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	4.962568	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	8.557784	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	11.793638	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	5.943044	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	5.667436	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	6.657919	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	6.619648	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	7.243889	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	5.472441	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	6.590474	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	6.651543	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	4.290699		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	5.613024		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	4.33002		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	11.380621		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	6.4715		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	9.276649		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	6.681542		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	4.056869		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	3.793647		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	7.661517	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	7.262861	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	5.669252	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	12.224315	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	12.32855	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	18.204391	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	14.9298	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	10.805188	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	10.74812	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	6.026661	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	7.333603	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	7.284727	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	jg15180, jg16749, jg22501, jg36058, jg37396, jg8098
Aizoaceae	Mesembryanthemum crystallinum	4	gene_14623, gene_15266, gene_6869, gene_692
Amaranthaceae	Atriplex hortensis	3	Ah004001, Ah016422, Ah027748
Amaranthaceae	Beta vulgaris	4	BVRB_1g013070, BVRB_5g104230, BVRB_5g108750, BVRB_7g171320
Amaranthaceae	Salicornia bigelovii	8	Sbi_jg1453, Sbi_jg15770, Sbi_jg15771, Sbi_jg24154 ... Sbi_jg35107, Sbi_jg40688, Sbi_jg50692, Sbi_jg7995
Amaranthaceae	Salicornia europaea	4	Seu_jg12044, Seu_jg13783, Seu_jg2252, Seu_jg3283
Amaranthaceae	Suaeda aralocaspica	3	GOSA_00003451, GOSA_00010746, GOSA_00026351
Amaranthaceae	Suaeda glauca	8	Sgl44166, Sgl48935, Sgl51333, Sgl52363, Sgl56578, Sgl57655 ... Sgl72711, Sgl76250
Amaranthaceae	Chenopodium album	13	gene:ENSEOMG00000005045, gene:ENSEOMG00000005973 ... gene:ENSEOMG00000007359, gene:ENSEOMG00000011887, gene:ENSEOMG00000022340, gene:ENSEOMG00000023048, gene:ENSEOMG00000023227, gene:ENSEOMG00000023536, gene:ENSEOMG00000024167, gene:ENSEOMG00000034902, gene:ENSEOMG00000036939, gene:ENSEOMG00000039874, gene:ENSEOMG00000047171
Amaranthaceae	Chenopodium quinoa	6	CQ.Regalona.r1.5AG0011380, CQ.Regalona.r1.5BG0005110 ... CQ.Regalona.r1.5BG0011820, CQ.Regalona.r1.7AG0005280, CQ.Regalona.r1.8AG0012430, CQ.Regalona.r1.9BG0000540
Anacardiaceae	Pistacia vera	4	pistato.v30055480, pistato.v30074910, pistato.v30133200 ... pistato.v30276840
Apiaceae	Apium graveolens	7	Ag11G04399, Ag1G00062, Ag2G01212, Ag2G01608, Ag3G00677 ... Ag6G02210, AgUnG00997
Arecaceae	Cocos nucifera	4	COCNU_03G000200, COCNU_10G009170, COCNU_15G004400 ... scaffold007358G000010
Arecaceae	Phoenix dactylifera	6	gene-LOC103707607, gene-LOC103710820, gene-LOC103714421 ... gene-LOC103714957, gene-LOC103722919, gene-LOC120103833
Asparagaceae	Asparagus officinalis	3	AsparagusV1_02.433.V1.1, AsparagusV1_05.1652.V1.1 ... AsparagusV1_10.135.V1.1
Asteraceae	Flaveria trinervia	6	Ftri10G20462, Ftri13G16792, Ftri15G02660, Ftri16G01695 ... Ftri2G16266, Ftri6G05228
Brassicaceae	Arabidopsis thaliana	5	AT1G32850.1, AT2G40930.1, AT4G10570.1, AT4G10590.2 ... AT5G22030.2
Brassicaceae	Eutrema salsugineum	5	Thhalv10006750m.g.v1.0, Thhalv10012650m.g.v1.0 ... Thhalv10016401m.g.v1.0, Thhalv10027354m.g.v1.0, Thhalv10028406m.g.v1.0
Brassicaceae	Schrenkiella parvula	4	Sp1g28150.v2.2, Sp4g23240.v2.2, Sp6g06860.v2.2 ... Sp6g23160.v2.2
Brassicaceae	Brassica nigra	9	BniB01g004480.2N, BniB01g008660.2N, BniB02g041530.2N ... BniB03g035870.2N, BniB04g049530.2N, BniB05g058320.2N, BniB08g010970.2N, BniB08g035970.2N, BniB08g052090.2N
Casuarinaceae	Casuarina equisetifolia	4	Ceq03G0661, Ceq04G0858, Ceq04G1239, Ceq05G1541
Casuarinaceae	Casuarina glauca	8	Cgl03G0751, Cgl04G0962, Cgl04G0963, Cgl04G0964, Cgl04G0965 ... Cgl04G0974, Cgl04G1402, Cgl05G1543
Cymodoceaceae	Cymodocea nodosa	3	gene.Cymno01g00060, gene.Cymno08g02970, gene.Cymno10g04770
Dunaliellaceae	Dunaliella salina	1	Dusal.0299s00004.v1.0
Hydrocharitaceae	Thalassia testudinum	3	gene.Thate02g29410, gene.Thate04g05110, gene.Thate04g21560
Nitrariaceae	Nitraria sibirica	4	evm.TU.LG01.1884, evm.TU.LG01.2662, evm.TU.LG09.547 ... evm.TU.LG10.1627
Plantaginaceae	Plantago ovata	4	Pov_00003074, Pov_00003619, Pov_00025505, Pov_00026576
Plumbaginaceae	Limonium bicolor	10	Lb1G02466, Lb2G10344, Lb2G13622, Lb2G15163, Lb3G20268 ... Lb4G23140, Lb5G28584, Lb5G28851, Lb5G28853, Lb6G29807
Poaceae	Echinochloa crus-galli	12	AH01.2506, AH03.279, AH04.1234, AH05.4108, BH01.2837 ... BH03.357, BH04.1208, BH05.4206, CH01.3043, CH03.429, CH04.1384, CH05.4432
Poaceae	Eleusine coracana subsp. coracana	10	gene-QOZ80_2AG0120360, gene-QOZ80_2BG0174840 ... gene-QOZ80_2BG0174850, gene-QOZ80_5AG0398500, gene-QOZ80_5BG0447120, gene-QOZ80_7AG0556150, gene-QOZ80_7BG0587090, gene-QOZ80_9AG0680900, gene-QOZ80_9BG0707130, gene-QOZ80_UnG0728540
Poaceae	Hordeum vulgare	4	HORVU.MOREX.r3.1HG0035690.2, HORVU.MOREX.r3.2HG0152430.1 ... HORVU.MOREX.r3.4HG0365930.1, HORVU.MOREX.r3.5HG0425920.1
Poaceae	Lolium multiflorum	6	gene-QYE76_001172, gene-QYE76_008273, gene-QYE76_010796 ... gene-QYE76_010860, gene-QYE76_042572, gene-QYE76_067043
Poaceae	Oryza coarctata	8	Oco13G001710, Oco14G001850, Oco19G001010, Oco20G001150 ... Oco21G005460, Oco22G006480, Oco23G010770, Oco24G010570
Poaceae	Oryza sativa	7	LOC_Os01g48600.1, LOC_Os07g06610.1, LOC_Os09g17480.1 ... LOC_Os10g07270.1, LOC_Os11g28360.1, LOC_Os11g28365.1, LOC_Os12g42600.1
Poaceae	Paspalum vaginatum	4	gene-BS78_02G039200, gene-BS78_05G127000, gene-BS78_K096800 ... gene-BS78_08G153700
Poaceae	Puccinellia tenuiflora	5	Pt_Chr0303555, Pt_Chr0303561, Pt_Chr0501276, Pt_Chr0704572 ... Pt_Chr0704933
Poaceae	Sporobolus alterniflorus	10	Chr06G020260, Chr07G017790, Chr09G006910, Chr0G004600 ... Chr13G017510, Chr13G017540, Chr19G007370, Chr19G017700, Chr27G009360, Chr31G004590
Poaceae	Thinopyrum elongatum	4	Tel1E01G240800, Tel2E01G460100, Tel4E01G276700 ... Tel5E01G066200
Poaceae	Triticum dicoccoides	8	gene_TRIDC1AG020490, gene_TRIDC1BG024290 ... gene_TRIDC2AG033710, gene_TRIDC2BG038310, gene_TRIDC4AG019950, gene_TRIDC4BG023930, gene_TRIDC5AG004000, gene_TRIDC5BG004140
Poaceae	Triticum aestivum	12	TraesCS1A02G137800.3, TraesCS1B02G149400.2 ... TraesCS1D02G132600.2, TraesCS2A02G248500.1, TraesCS2B02G268700.1, TraesCS2D02G250200.1, TraesCS4A02G139900.1, TraesCS4B02G148000.4, TraesCS4D02G153200.3, TraesCS5A02G027000.1, TraesCS5B02G026200.1, TraesCS5D02G034700.1
Poaceae	Zea mays	4	Zm00001eb026810_P002, Zm00001eb090590_P003 ... Zm00001eb134530_P002, Zm00001eb300350_P001
Poaceae	Zoysia japonica	3	nbis-gene-35742, nbis-gene-42352, nbis-gene-44472
Poaceae	Zoysia macrostachya	4	Zma_g15860, Zma_g17881, Zma_g25364, Zma_g4759
Portulacaceae	Portulaca oleracea	8	evm.TU.LG01.870, evm.TU.LG04.2760, evm.TU.LG04.3200 ... evm.TU.LG08.423, evm.TU.LG16.404, evm.TU.LG19.1110, evm.TU.LG23.144, evm.TU.LG24.1111
Posidoniaceae	Posidonia oceanica	3	gene.Posoc03g00190, gene.Posoc05g04310, gene.Posoc06g08640
Rhizophoraceae	Bruguiera sexangula	6	evm.TU.Scaffold_13_RagTag.560, evm.TU.Scaffold_16_RagTag.22 ... evm.TU.Scaffold_1_RagTag.1317, evm.TU.Scaffold_2_RagTag.1072, evm.TU.Scaffold_2_RagTag.1073, evm.TU.Scaffold_8_RagTag.213
Rhizophoraceae	Carallia pectinifolia	6	nbisL1-mrna-10111, nbisL1-mrna-10113, nbisL1-mrna-22236 ... nbisL1-mrna-22269, nbisL1-mrna-30510, nbisL1-mrna-4114
Rhizophoraceae	Ceriops tagal	5	nbisL1-mrna-11243, nbisL1-mrna-13319, nbisL1-mrna-17327 ... nbisL1-mrna-18149, nbisL1-mrna-19322
Rhizophoraceae	Ceriops zippeliana	5	nbisL1-mrna-10174, nbisL1-mrna-15946, nbisL1-mrna-17840 ... nbisL1-mrna-20455, nbisL1-mrna-4126
Rhizophoraceae	Kandelia candel	5	evm.TU.utg000009l.604, evm.TU.utg000015l.297 ... evm.TU.utg000016l.389, evm.TU.utg000018l.857, evm.TU.utg000022l.483
Rhizophoraceae	Kandelia obovata	3	Maker00003014, Maker00015233, Maker00017169
Rhizophoraceae	Rhizophora apiculata	6	nbisL1-mrna-12514, nbisL1-mrna-3149, nbisL1-mrna-3626 ... nbisL1-mrna-4215, nbisL1-mrna-7559, nbisL1-mrna-7560
Rhizophoraceae	Rhizophora mangle	5	nbisL1-mrna-11389, nbisL1-mrna-13494, nbisL1-mrna-15234 ... nbisL1-mrna-5682, nbisL1-mrna-6822
Salicaceae	Populus euphratica	7	populus_peu00224, populus_peu02478, populus_peu10782 ... populus_peu12390, populus_peu17229, populus_peu25987, populus_peu26318
Solanaceae	Lycium barbarum	4	gene-LOC132603622, gene-LOC132603822, gene-LOC132631635 ... gene-LOC132634695
Solanaceae	Solanum chilense	3	SOLCI000958500, SOLCI001556500, SOLCI003648000
Solanaceae	Solanum pennellii	3	gene-LOC107023873, gene-LOC107027916, gene-LOC107031377
Tamaricaceae	Reaumuria soongarica	5	gene_11654, gene_13537, gene_15447, gene_15448, gene_3657
Tamaricaceae	Tamarix chinensis	5	TC01G4483, TC06G0156, TC06G1181, TC09G0663, TC11G1297
Zosteraceae	Zostera marina	3	Zosma03g27640.v3.1, Zosma04g00580.v3.1, Zosma04g01490.v3.1