Basic Information
Locus ID:
Ag3G00828
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Belongs to the WD repeat SEC13 family
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 29608647 | 29611907 | - | Ag3G00828 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.63 | 32,531.14 Da | 27.90 | 77.71 | -0.21 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 207 | 241 | 0.021 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 96 | 132 | 0.02 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 147 | 192 | 0.018 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 47 | 86 | 1.6E-4 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 8 | 37 | 0.038 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 8 | 287 | 1.24E-46 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 2 | 301 | 2.5E-98 | IPR015943 |
| SMART | SM00320 | WD40_4 | 92 | 133 | 2.5E-4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 199 | 242 | 7.6E-4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 248 | 287 | 0.078 | IPR001680 |
| SMART | SM00320 | WD40_4 | 2 | 39 | 1.2 | IPR001680 |
| SMART | SM00320 | WD40_4 | 139 | 192 | 0.0065 | IPR001680 |
| SMART | SM00320 | WD40_4 | 45 | 86 | 9.5E-8 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 179 | 196 | 8.536777 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 52 | 86 | 9.539323 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 206 | 243 | 9.873505 | IPR001680 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 229 | 243 | 1.5E-5 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 73 | 87 | 1.5E-5 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 179 | 193 | 1.5E-5 | IPR020472 |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G01340.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_017237161.1 | PREDICTED: protein transport protein SEC13 homolog A [Daucus carota subsp. sativus] | 0 |
| Q9SRI1 | Protein transport protein SEC13 homolog A OS=Arabidopsis thaliana OX=3702 GN=SEC13A PE=1 SV=1 | 0 | |
| TrEMBL | A0A166C883 | WD_REPEATS_REGION domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_012175 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 42.073273 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 36.081841 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 32.497761 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 38.290634 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 38.67474 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 28.08432 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 28.849483 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 21.581469 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 40.198353 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 41.913574 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 38.487011 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 45.783249 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 42.526691 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 53.026554 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 60.800911 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 62.747902 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 64.785774 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 50.131641 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 56.088707 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 52.909016 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 45.011517 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 70.688744 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 80.713051 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 74.410805 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 69.356705 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 50.580685 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 53.563454 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 47.214828 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 53.688267 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 44.429977 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 39.084827 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 42.334938 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 85.602829 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 71.711472 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 93.908554 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 56.032883 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 49.987 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 63.306717 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 29.544714 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 26.522903 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 19.558653 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 50.185474 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 53.186607 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 37.502815 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 44.872574 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 50.917034 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 46.669582 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 63.057041 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 48.715973 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 50.472843 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg19813, jg25303, jg40321 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_10603 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah010982, Ah014283 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_8g193600 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg11312, Sbi_jg46272, Sbi_jg9402 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg19210, Seu_jg20610 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00005363 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl41952, Sgl46743, Sgl55846, Sgl61055 |
| Amaranthaceae | Chenopodium album | 5 | gene:ENSEOMG00000011262, gene:ENSEOMG00000031498 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.8AG0022550, CQ.Regalona.r1.8BG0019910 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30201420 |
| Apiaceae | Apium graveolens | 3 | Ag3G00828, Ag4G00821, Ag6G01850 |
| Arecaceae | Cocos nucifera | 3 | COCNU_01G001420, COCNU_01G005350, scaffold015856G000030 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103707340, gene-LOC103710412 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_01.2553.V1.1, AsparagusV1_01.362.V1.1 ... |
| Asteraceae | Flaveria trinervia | 2 | Ftri11G15093, Ftri16G05199 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT2G30050.1, AT3G01340.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10016789m.g.v1.0, Thhalv10021223m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp3g00730.v2.2, Sp4g12610.v2.2 |
| Brassicaceae | Brassica nigra | 4 | BniB01g014050.2N, BniB01g060590.2N, BniB06g019140.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq05G0338 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl05G0353 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno07g12450 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0081s00032.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate08g24930 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-8284 |
| Nitrariaceae | Nitraria sibirica | 4 | evm.TU.LG01.299, evm.TU.LG03.1642, evm.TU.LG05.447 ... |
| Plantaginaceae | Plantago ovata | 2 | Pov_00023392, Pov_00027915 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb1G03791, Lb1G03818 |
| Poaceae | Echinochloa crus-galli | 5 | AH02.194, AH03.711, BH03.2323, BH03.839, CH03.2398 |
| Poaceae | Eleusine coracana subsp. coracana | 6 | gene-QOZ80_1AG0001810, gene-QOZ80_1BG0050370 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.2HG0200730.1.CDS1 ... |
| Poaceae | Lolium multiflorum | 3 | gene-QYE76_005494, gene-QYE76_051327, gene-QYE76_060523 |
| Poaceae | Oryza coarctata | 7 | Oco02G005140, Oco03G002020, Oco05G028060, Oco06G029060 ... |
| Poaceae | Oryza sativa | 3 | LOC_Os02g04320.1, LOC_Os03g61630.2, LOC_Os07g14280.1 |
| Poaceae | Paspalum vaginatum | 3 | gene-BS78_02G197000, gene-BS78_03G017700 ... |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0702017, Pt_Chr0702079 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr02G012920, Chr02G028370, Chr10G009040, Chr14G014770 ... |
| Poaceae | Thinopyrum elongatum | 5 | Tel1E01G092500, Tel1E01G094000, Tel2E01G832500 ... |
| Poaceae | Triticum dicoccoides | 7 | gene_TRIDC1AG005100, gene_TRIDC1BG007100 ... |
| Poaceae | Triticum aestivum | 10 | TraesCS1A02G044200.1.cds1, TraesCS1B02G057100.1.cds1 ... |
| Poaceae | Zea mays | 4 | Zm00001eb096990_P001, Zm00001eb119930_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-26557, nbis-gene-32652 |
| Poaceae | Zoysia macrostachya | 4 | Zma_g32619, Zma_g4972, Zma_g6227, Zma_g7234 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG08.1223, evm.TU.LG22.133 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc05g18480, gene.Posoc05g22310 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_10_RagTag.1300, evm.TU.Scaffold_6_RagTag.210 ... |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-15031, nbisL1-mrna-7029 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-2716, nbisL1-mrna-672 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-173, nbisL1-mrna-8818 |
| Rhizophoraceae | Kandelia candel | 2 | add.evm.TU.utg000011l.49, add.evm.TU.utg000033l.175 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00007097, Maker00014631 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-21478, nbisL1-mrna-23423 |
| Rhizophoraceae | Rhizophora mangle | 3 | nbisL1-mrna-17401, nbisL1-mrna-17969, nbisL1-mrna-24355 |
| Salicaceae | Populus euphratica | 3 | populus_peu07273, populus_peu21269, populus_peu28563 |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132616801, gene-LOC132621217, gene-LOC132633408 |
| Solanaceae | Solanum chilense | 2 | SOLCI002165600, SOLCI006331400 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107011415, gene-LOC107012826 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.12217_chr02_-, gene_13816 |
| Tamaricaceae | Tamarix chinensis | 2 | TC08G1938, TC10G1208 |
| Zosteraceae | Zostera marina | 2 | Zosma02g03380.v3.1, Zosma02g24670.v3.1 |