Basic Information
Locus ID:
Ag5G01536
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
GDP-L-fucose synthase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 145529031 | 145530321 | + | Ag5G01536 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.55 | 35,130.87 Da | 17.10 | 95.94 | -0.11 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd05239 | GDP_FS_SDR_e | 14 | 313 | 0.0 | IPR028614 |
| Pfam | PF01370 | NAD dependent epimerase/dehydratase family | 15 | 246 | 4.0E-73 | IPR001509 |
| SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 12 | 316 | 2.72E-79 | IPR036291 |
| Gene3D | G3DSA:3.90.25.10 | - | 177 | 313 | 6.7E-126 | - |
| Gene3D | G3DSA:3.40.50.720 | - | 16 | 299 | 6.7E-126 | - |
| Hamap | MF_00956 | GDP-L-fucose synthase [fcl]. | 12 | 314 | 50.773006 | IPR028614 |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Pathway:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G73250.1 | GDP-4-keto-6-deoxymannose-3,5-epimerase-4-reductase 1. encodes a bifunctional 3, 5-epimerase-4-reductase in L-fucose synthesis and converts GDP-D-mannose to GDP-L-fucose in vitro along with MUR1 (GDP-D-mannose 4,6-dehydratase). It is expressed in all tissues examined, but most abundantly in roots and flowers. | 0 |
| RefSeq | XP_017219699.1 | PREDICTED: GDP-L-fucose synthase 1-like [Daucus carota subsp. sativus] | 0 |
| O49213 | GDP-L-fucose synthase 1 OS=Arabidopsis thaliana OX=3702 GN=GER1 PE=1 SV=3 | 0 | |
| TrEMBL | A0A164TJQ9 | GDP-L-fucose synthase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_024732 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 23.237206 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 22.844059 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 21.534241 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 22.179548 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 22.347845 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 14.484664 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 15.595274 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 11.690833 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 30.723965 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 34.461582 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 34.142689 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 35.350258 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 32.308739 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 33.257683 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 165.174011 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 156.303116 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 138.450729 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 71.83078 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 77.411743 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 65.383537 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 59.290401 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 96.213219 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 85.9506 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 82.456413 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 87.322083 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 82.79187 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 77.693466 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 66.680717 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 86.31562 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 16.57667 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 24.073362 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 24.51441 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 15.336574 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 16.251873 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 13.928028 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 24.33753 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 13.549388 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 18.011007 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 34.614395 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 19.324429 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 9.976702 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 30.333263 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 37.933323 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 42.138927 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 45.628368 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 33.114014 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 68.496483 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 25.30793 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 24.431072 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 24.188202 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg4032 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_3803 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah014900 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_8g191810 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg24794, Sbi_jg8659 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg19945 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00022263 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl42551, Sgl47305 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000009848, gene:ENSEOMG00000032256 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0017190, CQ.Regalona.r1.8BG0018390 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30264670 |
| Apiaceae | Apium graveolens | 1 | Ag5G01536 |
| Arecaceae | Cocos nucifera | 1 | COCNU_11G005540 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103707252, gene-LOC103709802 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_05.3433.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri18G30933 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G17890.1, AT1G73250.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10008184m.g.v1.0, Thhalv10018855m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g15980.v2.2, Sp5g28220.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB03g051510.2N, BniB03g051550.2N, BniB04g032440.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq03G2646 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl03G2789 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno04g13560, gene.Cymno05g14940 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0366s00015.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate02g39010, gene.Thate05g07120 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-42 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG05.838 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00000710 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb5G26611 |
| Poaceae | Echinochloa crus-galli | 6 | AH06.2496, AH06.2497, BH06.2294, BH06.2296, CH06.2513 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_6AG0546800, gene-QOZ80_6AG0546810 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.7HG0742070.1 |
| Poaceae | Lolium multiflorum | 4 | gene-QYE76_036545, gene-QYE76_037134, gene-QYE76_071831 ... |
| Poaceae | Oryza coarctata | 3 | Oco11G014140, Oco12G014310, Oco12G014320 |
| Poaceae | Oryza sativa | 3 | LOC_Os02g43510.1, LOC_Os06g44260.1, LOC_Os06g44270.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_10G211600 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0206369, Pt_Chr0401469 |
| Poaceae | Sporobolus alterniflorus | 6 | Chr02G031140, Chr05G008840, Chr0G000340, Chr10G019280 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel6E01G609400, Tel7E01G862100 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC7AG070370, gene_TRIDC7BG064850 |
| Poaceae | Triticum aestivum | 5 | TraesCS6B02G375000.1.cds1, TraesCS6D02G323500.1.cds1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb388990_P001 |
| Poaceae | Zoysia japonica | 3 | nbis-gene-40872, nbis-gene-9876, nbis-gene-9877 |
| Poaceae | Zoysia macrostachya | 3 | Zma_g30915, Zma_g30916, Zma_g33172 |
| Portulacaceae | Portulaca oleracea | 5 | evm.TU.LG01.1279, evm.TU.LG02.2604, evm.TU.LG11.1393 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g30970 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_10_RagTag.195, evm.TU.Scaffold_4_RagTag.2140 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-30123 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-15625, nbisL1-mrna-8770 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-16622, nbisL1-mrna-4896 |
| Rhizophoraceae | Kandelia candel | 3 | add.evm.TU.utg000008l.465, evm.TU.utg000008l.1248 ... |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00000034, Maker00014590 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-16640, nbisL1-mrna-1943 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-14580, nbisL1-mrna-9248 |
| Salicaceae | Populus euphratica | 2 | populus_peu05542, populus_peu12187 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132602052, gene-LOC132602904 |
| Solanaceae | Solanum chilense | 1 | SOLCI005034700 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107024001 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.12578_chr02_-, gene_7744 |
| Tamaricaceae | Tamarix chinensis | 2 | TC07G0089, TC10G0937 |
| Zosteraceae | Zostera marina | 1 | Zosma02g23810.v3.1 |