Basic Information
Locus ID:
Ag7G02189
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
histone deacetylase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr7 | 258643907 | 258650916 | + | Ag7G02189 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.16 | 47,921.14 Da | 42.69 | 88.25 | -0.01 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd09992 | HDAC_classII | 98 | 405 | 3.7723E-141 | - |
| Pfam | PF00850 | Histone deacetylase domain | 98 | 401 | 1.4E-86 | IPR023801 |
| SUPERFAMILY | SSF52768 | Arginase/deacetylase | 93 | 408 | 2.35E-92 | IPR023696 |
| Gene3D | G3DSA:3.40.800.20 | Histone deacetylase domain | 75 | 440 | 1.3E-101 | IPR037138 |
| PRINTS | PR01270 | Histone deacetylase superfamily signature | 334 | 344 | 3.9E-14 | IPR000286 |
| PRINTS | PR01270 | Histone deacetylase superfamily signature | 250 | 265 | 3.9E-14 | IPR000286 |
| PRINTS | PR01270 | Histone deacetylase superfamily signature | 216 | 239 | 3.9E-14 | IPR000286 |
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G33470.1 | histone deacetylase 14. Encodes HDA14, a member of the histone deacetylase family proteins. | 0 |
| RefSeq | XP_017230819.1 | PREDICTED: histone deacetylase 14 [Daucus carota subsp. sativus] | 0 |
| Q941D6 | Histone deacetylase 14, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=HDA14 PE=1 SV=1 | 0 | |
| TrEMBL | A0A166G8P0 | Hist_deacetyl domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_001205 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 12.771271 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 10.615135 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 8.647032 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 9.853109 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 10.21489 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 11.674602 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 6.761428 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 6.339044 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 11.085823 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 10.918636 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 11.168789 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 9.438769 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 10.6521 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 9.994466 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 3.670965 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 4.873784 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 4.779057 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 8.543113 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 9.039778 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 6.019976 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 5.574834 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 4.386456 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 4.555307 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 4.876215 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 4.898281 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 8.337984 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 7.387444 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 10.71902 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 7.582057 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 25.099714 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 27.183697 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 17.635401 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 16.557199 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 10.999767 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 14.971115 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 21.124546 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 15.471537 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 16.177717 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 10.517544 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 13.275408 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 22.254755 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 2.678632 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 5.75727 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 15.703705 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 11.716036 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 2.638162 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 6.630192 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 12.717957 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 10.878918 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 13.183236 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg17122 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_25245 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah027115 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g132780 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg13442, Sbi_jg52425 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg9425 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00013426 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl33759, Sgl39069 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000003261, gene:ENSEOMG00000003822 ... |
| Amaranthaceae | Chenopodium quinoa | 1 | CQ.Regalona.r1.6BG0023390 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30201370 |
| Apiaceae | Apium graveolens | 1 | Ag7G02189 |
| Arecaceae | Cocos nucifera | 1 | scaffold011718G000030 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103720526 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_02.643.V1.1, AsparagusV1_02.644.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri17G00371 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT4G33470.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10025266m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp7g31180.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB05g004610.2N, BniB05g008540.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G1710 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl06G1773 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno07g08820 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0280s00014.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate06g09700 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG02.895 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00014209 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb5G27789 |
| Poaceae | Echinochloa crus-galli | 3 | AH05.364, BH05.420, CH05.482 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_5AG0383950, gene-QOZ80_5BG0430770 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0456400.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_002583, gene-QYE76_071971 |
| Poaceae | Oryza coarctata | 2 | Oco23G003140, Oco24G002720 |
| Poaceae | Oryza sativa | 1 | LOC_Os12g08220.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_08G053900 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0703353 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr04G023510, Chr06G025320 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G217700 |
| Poaceae | Triticum dicoccoides | 1 | gene_TRIDC5BG021100 |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G119300.2, TraesCS5B02G121300.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb148900_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-46233 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g25579 |
| Portulacaceae | Portulaca oleracea | 1 | evm.TU.LG03.2427 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc05g11170 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_3_RagTag.861 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-1055, nbisL1-mrna-966 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-14611 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-6530 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000019l.678 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00012893 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-5143 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-19689 |
| Salicaceae | Populus euphratica | 1 | populus_peu13666 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132618149 |
| Solanaceae | Solanum chilense | 1 | SOLCI006922200 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107003959 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_11071 |
| Tamaricaceae | Tamarix chinensis | 1 | TC04G0384 |
| Zosteraceae | Zostera marina | 1 | Zosma05g16310.v3.1 |