Basic Information
Locus ID:
Ag2G00506
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
WD domain, G-beta repeat
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr2 | 12871798 | 12878601 | - | Ag2G00506 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 4.97 | 38,270.37 Da | 29.77 | 84.07 | -0.31 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 92 | 121 | 0.032 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 260 | 291 | 0.11 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 9 | 294 | 3.3E-43 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 9 | 224 | 5.6E-31 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 225 | 305 | 2.1E-7 | IPR015943 |
| SMART | SM00320 | WD40_4 | 40 | 79 | 0.78 | IPR001680 |
| SMART | SM00320 | WD40_4 | 124 | 163 | 0.002 | IPR001680 |
| SMART | SM00320 | WD40_4 | 82 | 121 | 0.013 | IPR001680 |
| SMART | SM00320 | WD40_4 | 166 | 205 | 110.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 251 | 291 | 0.015 | IPR001680 |
| PIRSF | PIRSF038169 | WD_rpt_55 | 1 | 349 | 7.1E-124 | IPR017422 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 259 | 293 | 8.67045 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 108 | 122 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 278 | 292 | - | IPR019775 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 301 | 349 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 310 | 329 | - | - |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G34260.1 | transducin family protein / WD-40 repeat family protein. | 0 |
| RefSeq | XP_017249568.1 | PREDICTED: WD repeat-containing protein 55 [Daucus carota subsp. sativus] | 0 |
| O80775 | WD repeat-containing protein 55 OS=Arabidopsis thaliana OX=3702 GN=WDR55 PE=1 SV=2 | 0 | |
| TrEMBL | A0A164ZKW7 | WD repeat-containing protein 55 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_019301 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 23.569172 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 15.436105 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 12.544079 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 12.920245 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 14.874436 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 17.229261 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 13.665826 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 10.024245 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 20.334053 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 18.243624 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 22.165718 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 22.656477 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 20.423008 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 18.710993 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 12.626906 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 14.077365 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 16.154282 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 12.410742 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 13.79097 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 13.201717 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 13.732875 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 19.435223 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 20.830334 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 21.064308 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 22.367376 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 15.948852 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 14.151443 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 16.055269 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 17.835981 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 6.029405 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 8.05491 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 8.443962 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 11.513912 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 19.640093 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 8.528685 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 8.156585 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 5.289664 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 4.931058 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 7.210362 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 4.121556 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 2.573112 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 16.624392 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 10.89002 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 28.070539 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 22.629076 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 23.984634 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 15.018023 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 30.255983 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 30.36974 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 30.352997 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg28624 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_22141 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah025008 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_3g063810 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg25929, Sbi_jg25930, Sbi_jg9768 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg18901 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00025658 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl21016, Sgl21017, Sgl44624, Sgl49381 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000011597, gene:ENSEOMG00000023271 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0003350, CQ.Regalona.r1.8BG0003430 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30016120 |
| Apiaceae | Apium graveolens | 1 | Ag2G00506 |
| Arecaceae | Cocos nucifera | 1 | COCNU_12G004770 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103705065, gene-LOC103716964 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_06.1288.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri1G10923 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G34260.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10016919m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g16550.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB01g009990.2N, BniB06g009710.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq01G2330, Ceq06G0020 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl01G2638, Cgl06G0023 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno11g05310 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0001s00037.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate08g13440 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-10691 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG12.71 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00025470 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb8G36127 |
| Poaceae | Echinochloa crus-galli | 4 | AH05.3939, BH05.4029, CH04.1040, CH05.4227 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_2AG0147700, gene-QOZ80_2BG0203130 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.1HG0082020.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_016085, gene-QYE76_016100 |
| Poaceae | Oryza coarctata | 2 | Oco13G014920, Oco14G015740 |
| Poaceae | Oryza sativa | 1 | LOC_Os07g46620.1 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0503976, Pt_Chr0504064 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr09G018440, Chr13G002850 |
| Poaceae | Thinopyrum elongatum | 1 | Tel1E01G544900 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC1AG051720, gene_TRIDC1BG058960 |
| Poaceae | Triticum aestivum | 3 | TraesCS1A02G350600.1, TraesCS1B02G364900.2 ... |
| Poaceae | Zea mays | 1 | Zm00001eb349300_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-40034, nbis-gene-8554 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g17260 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG18.771, evm.TU.LG20.1135 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc04g11460 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_3_RagTag.7 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-139, nbisL1-mrna-153 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-10518 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000019l.340 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00001759, Maker00006803 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-6620 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-2505 |
| Salicaceae | Populus euphratica | 2 | populus_peu09588, populus_peu24947 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132621860, gene-LOC132624855 |
| Solanaceae | Solanum chilense | 1 | SOLCI004561700 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107008855 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_11527 |
| Tamaricaceae | Tamarix chinensis | 1 | TC12G1766 |
| Zosteraceae | Zostera marina | 1 | Zosma06g01530.v3.1 |