Basic Information
Locus ID:
Ag5G00300
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Short Name:
VFB2
Description:
F-box domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 5580763 | 5583189 | - | Ag5G00300 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.58 | 57,353.55 Da | 49.62 | 96.58 | -0.02 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00646 | F-box domain | 38 | 79 | 7.6E-8 | IPR001810 |
| Pfam | PF13516 | Leucine Rich repeat | 128 | 151 | 0.053 | IPR001611 |
| SUPERFAMILY | SSF52047 | RNI-like | 89 | 450 | 9.81E-36 | - |
| SUPERFAMILY | SSF81383 | F-box domain | 31 | 71 | 5.76E-10 | IPR036047 |
| Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 74 | 471 | 2.5E-55 | IPR032675 |
| Gene3D | G3DSA:1.20.1280.50 | - | 38 | 73 | 1.1E-11 | - |
| SMART | SM00367 | LRR_CC_2 | 361 | 386 | 71.0 | IPR006553 |
| SMART | SM00367 | LRR_CC_2 | 282 | 307 | 14.0 | IPR006553 |
| SMART | SM00367 | LRR_CC_2 | 387 | 411 | 0.93 | IPR006553 |
| SMART | SM00367 | LRR_CC_2 | 308 | 335 | 81.0 | IPR006553 |
| SMART | SM00367 | LRR_CC_2 | 128 | 153 | 0.0021 | IPR006553 |
| ProSiteProfiles | PS50181 | F-box domain profile. | 36 | 82 | 9.047065 | IPR001810 |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G07400.1 | VIER F-box proteine 3. Encodes an F-box protein. Based on genetic analysis appears to be functionally redundant with VFB1,2,and 4. When levels of all 4 genes are reduced plants show defects in growth and reduced levels of auxin response genes. | 0 |
| RefSeq | XP_017219332.1 | PREDICTED: F-box protein SKIP2 [Daucus carota subsp. sativus] | 0 |
| Q9S9X4 | Putative F-box/LRR-repeat protein 8 OS=Arabidopsis thaliana OX=3702 GN=FBL8 PE=4 SV=1 | 0 | |
| TrEMBL | A0A164UBP8 | F-box domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_025753 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 35.170967 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 30.411484 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 33.180038 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 30.530966 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 32.742157 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 32.327862 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 36.388439 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 34.873131 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 66.785751 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 70.681984 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 71.16732 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 57.664013 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 53.899021 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 47.816334 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 22.33967 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 25.032637 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 18.536469 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 28.853313 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 23.706348 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 43.649773 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 37.123287 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 29.437315 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 30.388866 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 25.580486 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 30.099638 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 24.791286 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 21.551271 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 21.313883 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 23.691593 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 18.64933 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 18.101723 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 20.432842 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 104.751472 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 49.157669 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 113.77536 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 55.232021 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 39.708061 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 45.460472 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 31.426857 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 23.0557 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 15.736817 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 78.862541 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 117.07811 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 76.560753 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 61.938042 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 74.02877 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 71.79142 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 24.505184 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 21.337257 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 20.781862 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 7 | jg10671, jg11594, jg17402, jg17404, jg19665, jg22753, jg6237 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_16704 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah027613 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_1g015600, BVRB_6g127400 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg13079, Sbi_jg52800 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg9075 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00010178 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl33886, Sgl39257 |
| Amaranthaceae | Chenopodium album | 2 | gene:ENSEOMG00000002585, gene:ENSEOMG00000026604 |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.6AG0025490, CQ.Regalona.r1.6BG0027000 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30044820 |
| Apiaceae | Apium graveolens | 3 | Ag4G02825, Ag5G00300, Ag9G01311 |
| Arecaceae | Cocos nucifera | 3 | COCNU_01G010720, COCNU_08G004150, COCNU_11G007660 |
| Arecaceae | Phoenix dactylifera | 5 | gene-LOC103711933, gene-LOC103714278, gene-LOC103724360 ... |
| Asparagaceae | Asparagus officinalis | 4 | AsparagusV1_01.141.V1.1, AsparagusV1_04.2701.V1.1 ... |
| Asteraceae | Flaveria trinervia | 4 | Ftri10G30091, Ftri18G08934, Ftri18G27914, Ftri1G04118 |
| Brassicaceae | Arabidopsis thaliana | 4 | AT1G47056.1, AT3G50080.1, AT4G07400.1, AT5G67250.1 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10003994m.g.v1.0, Thhalv10011152m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 3 | Sp1g34260.v2.2, Sp2g29420.v2.2, Sp5g12030.v2.2 |
| Brassicaceae | Brassica nigra | 4 | BniB05g047540.2N, BniB06g014680.2N, BniB07g022350.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq03G1803, Ceq05G1355 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl03G1942 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno17g04580 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0056s00010.v1.0, Dusal.0655s00010.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g28810 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-1233, nbisL1-mrna-8824 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG06.390 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00027533, Pov_00029170 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb3G20806 |
| Poaceae | Echinochloa crus-galli | 4 | AH03.1226, BH03.1370, BH09.1684, CH03.1636 |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_4AG0311480, gene-QOZ80_4BG0342750 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.2HG0180090.1.CDS1 ... |
| Poaceae | Lolium multiflorum | 8 | gene-QYE76_003926, gene-QYE76_003927, gene-QYE76_017935 ... |
| Poaceae | Oryza coarctata | 4 | Oco07G010140, Oco08G009960, Oco17G000290, Oco18G000270 |
| Poaceae | Oryza sativa | 5 | LOC_Os03g19660.1, LOC_Os03g42740.1, LOC_Os03g45910.1 ... |
| Poaceae | Paspalum vaginatum | 3 | gene-BS78_06G152700, gene-BS78_K036700, gene-BS78_K198300 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0604463 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr10G004540, Chr11G014480, Chr21G007640, Chr23G009290 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel2E01G629700, Tel5E01G276400 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC2AG052100, gene_TRIDC2BG055440 ... |
| Poaceae | Triticum aestivum | 5 | TraesCS2A02G359900.1, TraesCS2D02G358900.1.cds1 ... |
| Poaceae | Zea mays | 4 | Zm00001eb078000_P001, Zm00001eb307130_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-43691, nbis-gene-5215 |
| Poaceae | Zoysia macrostachya | 3 | Zma_g20010, Zma_g21578, Zma_g29785 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG04.1048, evm.TU.LG05.1595 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc10g04940 |
| Rhizophoraceae | Bruguiera sexangula | 5 | evm.TU.60424.5, evm.TU.Scaffold_3_RagTag.158 ... |
| Rhizophoraceae | Carallia pectinifolia | 4 | nbisL1-mrna-17299, nbisL1-mrna-19208, nbisL1-mrna-725 ... |
| Rhizophoraceae | Ceriops tagal | 4 | nbisL1-mrna-10354, nbisL1-mrna-17832, nbisL1-mrna-19855 ... |
| Rhizophoraceae | Ceriops zippeliana | 4 | nbisL1-mrna-11934, nbisL1-mrna-20694, nbisL1-mrna-6106 ... |
| Rhizophoraceae | Kandelia candel | 4 | add.evm.TU.utg000002l.235, add.evm.TU.utg000011l.460 ... |
| Rhizophoraceae | Kandelia obovata | 4 | Maker00003617, Maker00007901, Maker00010619, Maker00012711 |
| Rhizophoraceae | Rhizophora apiculata | 4 | nbisL1-mrna-19336, nbisL1-mrna-20051, nbisL1-mrna-21254 ... |
| Rhizophoraceae | Rhizophora mangle | 4 | nbisL1-mrna-10032, nbisL1-mrna-2198, nbisL1-mrna-23855 ... |
| Salicaceae | Populus euphratica | 4 | populus_peu11259, populus_peu14424, populus_peu23356 ... |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132616539, gene-LOC132623375, gene-LOC132627821 |
| Solanaceae | Solanum chilense | 2 | SOLCI002790000, SOLCI004409500 |
| Solanaceae | Solanum pennellii | 3 | gene-LOC107008748, gene-LOC107015499, gene-LOC107017623 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.30978_chr11_-, gene_3856 |
| Tamaricaceae | Tamarix chinensis | 2 | TC04G1799, TC04G2573 |
| Zosteraceae | Zostera marina | 1 | Zosma05g19370.v3.1 |