halophFGD

Basic Information

Locus ID: Ag10G00121

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: Belongs to the histone deacetylase family. HD Type 1 subfamily

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr10	37678772	37686630	-	Ag10G00121

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
5.75	47,023.59 Da	39.31	75.61	-0.38

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd09991	HDAC_classI	27	334	0.0	-
Pfam	PF00850	Histone deacetylase domain	40	331	7.2E-89	IPR023801
SUPERFAMILY	SSF52768	Arginase/deacetylase	22	386	3.93E-121	IPR023696
Gene3D	G3DSA:3.40.800.20	Histone deacetylase domain	13	400	1.0E-134	IPR037138
PIRSF	PIRSF037913	HDAC_I_euk	8	419	2.2E-197	IPR003084
PRINTS	PR01271	Histone deacetylase signature	75	93	2.1E-58	IPR003084
PRINTS	PR01270	Histone deacetylase superfamily signature	183	198	2.4E-24	IPR000286
PRINTS	PR01270	Histone deacetylase superfamily signature	269	279	2.4E-24	IPR000286
PRINTS	PR01270	Histone deacetylase superfamily signature	151	174	2.4E-24	IPR000286
PRINTS	PR01271	Histone deacetylase signature	170	186	2.1E-58	IPR003084
PRINTS	PR01271	Histone deacetylase signature	230	243	2.1E-58	IPR003084
PRINTS	PR01271	Histone deacetylase signature	247	265	2.1E-58	IPR003084
PRINTS	PR01271	Histone deacetylase signature	129	149	2.1E-58	IPR003084
PRINTS	PR01271	Histone deacetylase signature	108	125	2.1E-58	IPR003084
PRINTS	PR01271	Histone deacetylase signature	42	59	2.1E-58	IPR003084
MobiDBLite	mobidb-lite	consensus disorder prediction	405	419	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	398	419	-	-

Gene Ontology

Molecular Function:

GO:0004407 (histone deacetylase activity)

KEGG Pathway

KO Term:

K06067 (histone deacetylase 1/2 [EC:3.5.1.98])

Pathway:

ko04110 (Cell cycle) map04110 (Cell cycle) ko04213 (Longevity regulating pathway - multiple species) map04213 (Longevity regulating pathway - multiple species) ko04330 (Notch signaling pathway) map04330 (Notch signaling pathway)

Best hit

Source	Best Hit ID	Description
TAIR	AT5G63110.1	histone deacetylase 6. RPD3-like histone deacetylase. HDA6 mutations specifically increase the expression of auxin-responsive transgenes, suggesting a role in transgene silencing.
RefSeq	XP_031091912.1	histone deacetylase 6 [Ipomoea triloba]
Swiss-Prot	Q9FML2	Histone deacetylase 6 OS=Arabidopsis thaliana OX=3702 GN=HDA6 PE=1 SV=1
TrEMBL	A0A328DPI3	Histone deacetylase OS=Cuscuta australis OX=267555 GN=DM860_011310 PE=3 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	3.213417	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	2.252733	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	1.608549	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	1.76077	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	1.340908	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	2.906221	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	2.036854	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	2.153911	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	4.69069	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	4.902015	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	5.388153	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	4.609637	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	6.395051	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	4.40305	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	3.217351	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	2.364859	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	3.376653	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	4.159239	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	3.36703	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	3.328075	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	5.021509	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	3.484943	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	3.058171	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	5.278982	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	4.083286	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	3.561123	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	3.624801	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	2.984208	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	5.043322	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	5.749721		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	7.012596		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	4.958986		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	5.954656		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	4.517591		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	5.333896		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	3.27408		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	3.647849		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	3.108802		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	1.610671	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	2.84752	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	3.732706	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	7.045435	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	7.523045	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	6.960254	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	8.611177	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	6.614939	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	7.627576	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	10.119895	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	12.984824	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	14.718319	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	3	jg22524, jg27523, jg37594
Aizoaceae	Mesembryanthemum crystallinum	3	gene_19483, gene_19885, gene_6783
Amaranthaceae	Atriplex hortensis	3	Ah000539, Ah006577, Ah031725
Amaranthaceae	Beta vulgaris	2	BVRB_5g117920, BVRB_9g218010
Amaranthaceae	Salicornia bigelovii	6	Sbi_jg11170, Sbi_jg19334, Sbi_jg285, Sbi_jg36223 ... Sbi_jg43890, Sbi_jg46144
Amaranthaceae	Salicornia europaea	3	Seu_jg18031, Seu_jg20484, Seu_jg4316
Amaranthaceae	Suaeda aralocaspica	3	GOSA_00013848, GOSA_00014885, GOSA_00022160
Amaranthaceae	Suaeda glauca	8	Sgl25357, Sgl30533, Sgl55158, Sgl60408, Sgl65464, Sgl65465 ... Sgl65498, Sgl69819
Amaranthaceae	Chenopodium album	9	gene:ENSEOMG00000006091, gene:ENSEOMG00000010777 ... gene:ENSEOMG00000014298, gene:ENSEOMG00000020239, gene:ENSEOMG00000024764, gene:ENSEOMG00000024994, gene:ENSEOMG00000030047, gene:ENSEOMG00000042795, gene:ENSEOMG00000051056
Amaranthaceae	Chenopodium quinoa	6	CQ.Regalona.r1.2AG0000590, CQ.Regalona.r1.2BG0001900 ... CQ.Regalona.r1.4AG0013200, CQ.Regalona.r1.4BG0015480, CQ.Regalona.r1.5AG0023500, CQ.Regalona.r1.5BG0025000
Anacardiaceae	Pistacia vera	3	pistato.v30057020, pistato.v30107170, pistato.v30139780
Apiaceae	Apium graveolens	5	Ag10G00121, Ag11G03444, Ag11G04365, Ag3G00588, Ag5G00708
Arecaceae	Cocos nucifera	5	COCNU_06G001220, COCNU_14G000530, COCNU_14G005740 ... COCNU_15G000030, scaffold016592G000080
Arecaceae	Phoenix dactylifera	6	gene-LOC103706146, gene-LOC103708153, gene-LOC103709297 ... gene-LOC103721325, gene-LOC103721589, gene-LOC113462888
Asparagaceae	Asparagus officinalis	5	AsparagusV1_01.2263.V1.1, AsparagusV1_01.2685.V1.1 ... AsparagusV1_02.853.V1.1, AsparagusV1_02.854.V1.1, AsparagusV1_03.3063.V1.1
Asteraceae	Flaveria trinervia	3	Ftri12G29285, Ftri2G21553, FtriNA33547
Brassicaceae	Arabidopsis thaliana	4	AT3G44680.1, AT4G38130.1, AT5G35600.1, AT5G63110.1
Brassicaceae	Eutrema salsugineum	3	Thhalv10002540m.g.v1.0, Thhalv10005608m.g.v1.0 ... Thhalv10025146m.g.v1.0
Brassicaceae	Schrenkiella parvula	4	Sp2g26240.v2.2, Sp5g13800.v2.2, Sp5g16560.v2.2 ... Sp7g37620.v2.2
Brassicaceae	Brassica nigra	8	BniB01g060620.2N, BniB06g011560.2N, BniB07g042070.2N ... BniB07g062040.2N, BniB08g057690.2N, BniB08g061490.2N, BniB08g061500.2N, BniB08g061510.2N
Casuarinaceae	Casuarina equisetifolia	4	Ceq01G1913, Ceq03G1442, Ceq05G1765, Ceq09G0007
Casuarinaceae	Casuarina glauca	4	Cgl01G2080, Cgl03G1577, Cgl05G1756, Cgl09G0006
Cymodoceaceae	Cymodocea nodosa	4	gene.Cymno07g00140, gene.Cymno07g07130, gene.Cymno09g05450 ... gene.Cymno11g05370
Dunaliellaceae	Dunaliella salina	3	Dusal.0001s00049.v1.0, Dusal.0020s00020.v1.0 ... Dusal.0591s00004.v1.0
Hydrocharitaceae	Thalassia testudinum	3	gene.Thate02g16210, gene.Thate04g01140, gene.Thate09g05930
Malvaceae	Hibiscus hamabo Siebold & Zucc.	1	nbisL1-mrna-9405
Nitrariaceae	Nitraria sibirica	3	evm.TU.LG08.477, evm.TU.LG09.725, evm.TU.LG10.683
Plantaginaceae	Plantago ovata	5	Pov_00012250, Pov_00014185, Pov_00015850, Pov_00033780 ... Pov_00037523
Plumbaginaceae	Limonium bicolor	3	Lb3G19854, Lb4G25722, Lb6G31512
Poaceae	Echinochloa crus-galli	14	AH06.2118, AH07.828, AH09.893, BH02.2235, BH05.1650 ... BH06.1934, BH07.973, BH08.1152, BH09.963, CH02.2390, CH06.2161, CH07.718, CH08.1280, CH09.1079
Poaceae	Eleusine coracana subsp. coracana	12	gene-QOZ80_1AG0022330, gene-QOZ80_1BG0072590 ... gene-QOZ80_2AG0106100, gene-QOZ80_2AG0135470, gene-QOZ80_2BG0159570, gene-QOZ80_4AG0318680, gene-QOZ80_4BG0350150, gene-QOZ80_6AG0543680, gene-QOZ80_6BG0497030, gene-QOZ80_8AG0626910, gene-QOZ80_8BG0655760, gene-QOZ80_8BG0666260
Poaceae	Hordeum vulgare	6	HORVU.MOREX.r3.2HG0165820.1, HORVU.MOREX.r3.4HG0346510.1 ... HORVU.MOREX.r3.5HG0495300.1.CDS1, HORVU.MOREX.r3.6HG0578170.1, HORVU.MOREX.r3.6HG0578930.1, HORVU.MOREX.r3.7HG0715600.1
Poaceae	Lolium multiflorum	7	gene-QYE76_006558, gene-QYE76_021568, gene-QYE76_034637 ... gene-QYE76_043452, gene-QYE76_048251, gene-QYE76_053498, gene-QYE76_053706
Poaceae	Oryza coarctata	9	Oco01G013450, Oco02G013610, Oco03G005620, Oco04G005800 ... Oco07G005150, Oco11G011780, Oco12G011860, Oco15G006670, Oco16G006490
Poaceae	Oryza sativa	9	LOC_Os01g40350.1, LOC_Os01g40400.1, LOC_Os02g12350.1 ... LOC_Os02g12380.1, LOC_Os04g33480.1, LOC_Os06g38470.1, LOC_Os08g25570.1, LOC_Os11g09370.1, LOC_Os11g09418.1
Poaceae	Paspalum vaginatum	6	gene-BS78_03G176400, gene-BS78_04G085200 ... gene-BS78_05G109800, gene-BS78_06G083400, gene-BS78_07G107000, gene-BS78_10G175800
Poaceae	Puccinellia tenuiflora	8	Pt_Chr0202019, Pt_Chr0302847, Pt_Chr0302917, Pt_Chr0303060 ... Pt_Chr0303072, Pt_Chr0400554, Pt_Chr0405914, Pt_Chr0701390
Poaceae	Sporobolus alterniflorus	15	Chr02G016840, Chr05G017190, Chr06G028580, Chr06G032690 ... Chr06G032730, Chr0G019720, Chr0G029240, Chr10G017040, Chr11G005410, Chr15G019840, Chr15G024070, Chr16G012960, Chr17G012380, Chr23G013680, Chr29G007510
Poaceae	Thinopyrum elongatum	7	Tel2E01G520900, Tel2E01G521000, Tel3E01G198400 ... Tel5E01G471700, Tel6E01G359200, Tel6E01G363200, Tel7E01G612000
Poaceae	Triticum dicoccoides	9	gene_TRIDC2AG042390, gene_TRIDC2BG045510 ... gene_TRIDC5AG044140, gene_TRIDC6AG026100, gene_TRIDC6AG026730, gene_TRIDC6BG032360, gene_TRIDC6BG032740, gene_TRIDC7AG051150, gene_TRIDC7BG042690
Poaceae	Triticum aestivum	17	TraesCS2A02G293200.1, TraesCS2B02G309700.1 ... TraesCS2D02G291000.1, TraesCS4A02G213200.1, TraesCS4B02G102600.1, TraesCS4D02G100000.1, TraesCS5A02G295000.1.cds1, TraesCS5D02G302400.1.cds1, TraesCS6A02G181100.1, TraesCS6A02G184100.2, TraesCS6B02G210200.1, TraesCS6B02G212600.3, TraesCS6D02G168400.1, TraesCS6D02G171000.1, TraesCS7A02G365600.3, TraesCS7B02G261800.1, TraesCS7D02G356800.1
Poaceae	Zea mays	5	Zm00001eb084120_P001, Zm00001eb177560_P001 ... Zm00001eb205290_P002, Zm00001eb240210_P002, Zm00001eb385490_P002
Poaceae	Zoysia japonica	6	nbis-gene-10152, nbis-gene-33394, nbis-gene-41135 ... nbis-gene-43327, nbis-gene-50929, nbis-gene-7754
Poaceae	Zoysia macrostachya	6	Zma_g12442, Zma_g12544, Zma_g21219, Zma_g22831, Zma_g30745 ... Zma_g32986
Portulacaceae	Portulaca oleracea	6	evm.TU.LG02.983, evm.TU.LG03.1890, evm.TU.LG06.1364 ... evm.TU.LG09.981, evm.TU.LG11.704, evm.TU.LG14.175
Posidoniaceae	Posidonia oceanica	3	gene.Posoc04g11550, gene.Posoc04g20140, gene.Posoc05g22720
Rhizophoraceae	Bruguiera sexangula	3	evm.TU.Scaffold_11_RagTag.1064 ... evm.TU.Scaffold_13_RagTag.463, evm.TU.Scaffold_1_RagTag.2410
Rhizophoraceae	Carallia pectinifolia	3	nbisL1-mrna-14738, nbisL1-mrna-30643, nbisL1-mrna-5161
Rhizophoraceae	Ceriops tagal	3	nbisL1-mrna-5033, nbisL1-mrna-7463, nbisL1-mrna-8164
Rhizophoraceae	Ceriops zippeliana	3	nbisL1-mrna-12622, nbisL1-mrna-21034, nbisL1-mrna-3171
Rhizophoraceae	Kandelia candel	3	evm.TU.utg000010l.138, evm.TU.utg000015l.242 ... evm.TU.utg000016l.3
Rhizophoraceae	Kandelia obovata	3	Maker00008887, Maker00015452, Maker00017258
Rhizophoraceae	Rhizophora apiculata	4	nbisL1-mrna-18551, nbisL1-mrna-4161, nbisL1-mrna-4562 ... nbisL1-mrna-720
Rhizophoraceae	Rhizophora mangle	4	nbisL1-mrna-22153, nbisL1-mrna-22535, nbisL1-mrna-22536 ... nbisL1-mrna-8699
Salicaceae	Populus euphratica	4	populus_peu00125, populus_peu08383, populus_peu28698 ... populus_peu30123
Solanaceae	Lycium barbarum	3	gene-LOC132600547, gene-LOC132601610, gene-LOC132609445
Solanaceae	Solanum chilense	4	SOLCI001597500, SOLCI002971200, SOLCI004502400 ... SOLCI006985000
Solanaceae	Solanum pennellii	4	gene-LOC107004476, gene-LOC107014089, gene-LOC107020997 ... gene-LOC107031546
Tamaricaceae	Reaumuria soongarica	5	STRG.8613_chr06_-, STRG.8616_chr06_-, gene_10424, gene_14351 ... gene_820
Tamaricaceae	Tamarix chinensis	5	TC01G2597, TC03G2708, TC08G2504, TC09G2116, TC09G2122
Zosteraceae	Zostera marina	4	Zosma01g01880.v3.1, Zosma04g24440.v3.1, Zosma06g10000.v3.1 ... Zosma06g18840.v3.1