Basic Information
Locus ID:
Ag5G00725
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Autophagy-related protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 28927220 | 28930978 | + | Ag5G00725 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.73 | 55,965.32 Da | 36.67 | 87.65 | -0.29 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 222 | 509 | 1.508E-59 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 355 | 380 | 0.12 | IPR001680 |
| Pfam | PF08614 | Autophagy protein 16 (ATG16) | 49 | 169 | 1.2E-14 | IPR013923 |
| Pfam | PF00400 | WD domain, G-beta repeat | 447 | 468 | 0.022 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 223 | 254 | 0.012 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 302 | 339 | 4.2E-6 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 474 | 509 | 0.27 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 214 | 509 | 1.67E-69 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 44 | 352 | 1.4E-33 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 353 | 510 | 5.3E-34 | IPR015943 |
| SMART | SM00320 | WD40_4 | 342 | 380 | 0.048 | IPR001680 |
| SMART | SM00320 | WD40_4 | 257 | 296 | 0.0035 | IPR001680 |
| SMART | SM00320 | WD40_4 | 215 | 254 | 3.3E-4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 299 | 339 | 3.1E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 383 | 422 | 0.0021 | IPR001680 |
| SMART | SM00320 | WD40_4 | 471 | 510 | 4.6E-5 | IPR001680 |
| SMART | SM00320 | WD40_4 | 425 | 468 | 0.36 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 264 | 305 | 8.737287 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 478 | 510 | 9.97376 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 390 | 425 | 9.372231 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 306 | 343 | 9.54651 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 357 | 389 | 10.14085 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 222 | 263 | 13.649761 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 306 | 348 | 12.112524 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 449 | 477 | 9.97376 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 478 | 510 | 9.731054 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 222 | 259 | 10.311051 | - |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 326 | 340 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 367 | 381 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 241 | 255 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 326 | 340 | 9.1E-8 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 367 | 381 | 9.1E-8 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 241 | 255 | 9.1E-8 | IPR020472 |
| Coils | Coil | Coil | 115 | 156 | - | - |
| Coils | Coil | Coil | 165 | 185 | - | - |
| Coils | Coil | Coil | 52 | 72 | - | - |
| Coils | Coil | Coil | 87 | 107 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G50230.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_017218742.1 | PREDICTED: autophagy-related protein 16-like [Daucus carota subsp. sativus] | 0 |
| Q6NNP0 | Autophagy-related protein 16 OS=Arabidopsis thaliana OX=3702 GN=ATG16 PE=1 SV=1 | 0 | |
| TrEMBL | A0A164UN80 | ATG16 domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_026196 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 7.231536 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.72347 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 7.117733 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 6.796126 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 6.601447 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 6.229434 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 6.103961 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 4.569897 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 13.087114 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 13.739285 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 14.36745 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 18.328234 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 16.711325 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 15.222298 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 7.901606 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 8.03551 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 9.794185 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 9.321636 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 9.995559 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 8.24231 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 10.177408 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 10.784367 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 9.583105 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 13.088233 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 11.82628 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 10.490291 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 10.411621 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 9.81787 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 10.601651 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 3.008351 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 4.304953 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 3.854668 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 7.989988 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 8.005844 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 7.408905 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 4.927253 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 2.565682 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.261886 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 7.182608 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 5.399452 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 4.625104 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 11.381057 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 14.215871 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 12.450772 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 12.121257 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 12.356651 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 15.381226 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 10.724292 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 12.660073 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 12.724336 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg12997 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_6552 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah028491 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg26691, Sbi_jg33873, Sbi_jg33874 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg15204 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00011782 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl74002, Sgl77506 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000004674, gene:ENSEOMG00000037015 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.7AG0008680, CQ.Regalona.r1.7AG0014240 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30140420 |
| Apiaceae | Apium graveolens | 2 | Ag5G00725, Ag6G00053 |
| Arecaceae | Cocos nucifera | 4 | COCNU_03G003810, scaffold002938G000060 ... |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC120107146 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_02.910.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri9G19330 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G50230.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10013321m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g12330.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB02g027290.2N, BniB02g027300.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq01G1858 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl01G2026 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno07g12830 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0798s00005.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g23200 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG10.1000 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00019685 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb5G26910, Lb5G26911 |
| Poaceae | Echinochloa crus-galli | 3 | BH01.759, CH01.755, Contig309.106 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0216440, gene-QOZ80_3BG0261760 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0510100.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_061913 |
| Poaceae | Oryza coarctata | 2 | Oco05G023410, Oco06G024300 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g53510.2 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G083300 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0107128 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr07G027400, Chr12G037790 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G612500 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG056260, gene_TRIDC5BG060300 |
| Poaceae | Triticum aestivum | 1 | TraesCS5D02G394200.1 |
| Poaceae | Zea mays | 1 | Zm00001eb057050_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-15041, nbis-gene-16127 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g2812, Zma_g493 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG03.1128, evm.TU.LG12.598 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc05g01660 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_11_RagTag.1102 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-14783 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-14249 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-12651 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000010l.162 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00009010 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-698 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-8732 |
| Salicaceae | Populus euphratica | 1 | populus_peu28762 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132632551 |
| Solanaceae | Solanum chilense | 1 | SOLCI004735100 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107015028 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_11176 |
| Tamaricaceae | Tamarix chinensis | 1 | TC08G2565 |
| Zosteraceae | Zostera marina | 1 | Zosma04g00830.v3.1 |