halophFGD

Basic Information

Locus ID: Ag5G00708

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
chr5	27770675	27775005	-	Ag5G00708

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
5.91	48,352.09 Da	39.93	75.60	-0.36

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd09991	HDAC_classI	26	333	0.0	-
Pfam	PF00850	Histone deacetylase domain	40	331	4.4E-87	IPR023801
SUPERFAMILY	SSF52768	Arginase/deacetylase	21	386	3.84E-123	IPR023696
Gene3D	G3DSA:3.40.800.20	Histone deacetylase domain	12	399	2.1E-137	IPR037138
PIRSF	PIRSF037913	HDAC_I_euk	7	428	8.2E-203	IPR003084
PRINTS	PR01270	Histone deacetylase superfamily signature	268	278	2.0E-24	IPR000286
PRINTS	PR01270	Histone deacetylase superfamily signature	183	198	2.0E-24	IPR000286
PRINTS	PR01271	Histone deacetylase signature	75	93	8.1E-60	IPR003084
PRINTS	PR01270	Histone deacetylase superfamily signature	151	174	2.0E-24	IPR000286
PRINTS	PR01271	Histone deacetylase signature	229	242	8.1E-60	IPR003084
PRINTS	PR01271	Histone deacetylase signature	42	59	8.1E-60	IPR003084
PRINTS	PR01271	Histone deacetylase signature	246	264	8.1E-60	IPR003084
PRINTS	PR01271	Histone deacetylase signature	108	125	8.1E-60	IPR003084
PRINTS	PR01271	Histone deacetylase signature	129	149	8.1E-60	IPR003084
PRINTS	PR01271	Histone deacetylase signature	170	186	8.1E-60	IPR003084
MobiDBLite	mobidb-lite	consensus disorder prediction	404	432	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	406	426	-	-

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_017252322.1	PREDICTED: histone deacetylase 6-like [Daucus carota subsp. sativus]
Swiss-Prot	Q9FML2	Histone deacetylase 6 OS=Arabidopsis thaliana OX=3702 GN=HDA6 PE=1 SV=1
TrEMBL	A0A164UMJ7	Histone deacetylase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_026166 PE=3 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	59.130898	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	43.439026	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	44.388569	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	39.274372	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	40.548794	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	32.018978	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	35.70961	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	30.997984	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	39.010841	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	42.360775	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	46.126442	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	47.958927	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	47.93951	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	41.429901	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	12.891088	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	17.354473	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	19.209505	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	18.303818	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	15.222406	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	20.994621	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	22.698101	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	22.403711	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	29.012751	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	21.9209	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	24.154709	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	21.870451	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	21.49045	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	19.506163	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	23.612011	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	27.471701		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	22.682121		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	21.587477		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	40.676048		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	30.847124		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	28.30871		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	30.177374		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	29.068359		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	29.918472		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	20.517509	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	14.712204	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	11.794143	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	23.02183	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	27.043676	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	44.278885	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	37.319546	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	28.653589	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	31.890574	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	36.02195	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	32.372231	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	35.421677	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