Basic Information
Locus ID:
Ag5G00369
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
U-box domain-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 11096250 | 11106092 | - | Ag5G00369 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.41 | 84,539.53 Da | 52.21 | 89.81 | -0.30 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00035 | Double-stranded RNA binding motif | 158 | 216 | 1.4E-7 | IPR014720 |
| Pfam | PF00035 | Double-stranded RNA binding motif | 73 | 137 | 1.6E-11 | IPR014720 |
| SUPERFAMILY | SSF54768 | dsRNA-binding domain-like | 67 | 139 | 1.38E-18 | - |
| SUPERFAMILY | SSF48371 | ARM repeat | 424 | 702 | 4.4E-35 | IPR016024 |
| SUPERFAMILY | SSF54768 | dsRNA-binding domain-like | 157 | 222 | 2.36E-10 | - |
| Gene3D | G3DSA:3.30.160.20 | - | 58 | 144 | 5.0E-20 | - |
| Gene3D | G3DSA:1.25.10.10 | - | 417 | 764 | 4.9E-45 | IPR011989 |
| Gene3D | G3DSA:3.30.160.20 | - | 145 | 223 | 3.2E-14 | - |
| SMART | SM00358 | DRBM_3 | 73 | 140 | 6.9E-17 | IPR014720 |
| SMART | SM00358 | DRBM_3 | 157 | 220 | 2.8E-7 | IPR014720 |
| SMART | SM00185 | arm_5 | 617 | 658 | 92.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 533 | 573 | 0.055 | IPR000225 |
| SMART | SM00185 | arm_5 | 450 | 491 | 32.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 493 | 532 | 0.0034 | IPR000225 |
| SMART | SM00185 | arm_5 | 574 | 616 | 51.0 | IPR000225 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 462 | 504 | 11.0074 | IPR000225 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 504 | 545 | 10.587399 | IPR000225 |
| ProSiteProfiles | PS50137 | Double stranded RNA-binding domain (dsRBD) profile. | 72 | 141 | 12.256695 | IPR014720 |
| ProSiteProfiles | PS50137 | Double stranded RNA-binding domain (dsRBD) profile. | 156 | 221 | 9.149329 | IPR014720 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 24 | 43 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 29 | 43 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G03440.1 | ARM repeat superfamily protein. | 0 |
| RefSeq | XP_017218392.1 | PREDICTED: U-box domain-containing protein 4-like [Daucus carota subsp. sativus] | 0 |
| Q6EUK7 | U-box domain-containing protein 4 OS=Oryza sativa subsp. japonica OX=39947 GN=PUB4 PE=2 SV=1 | 0 | |
| TrEMBL | A0A164UEX6 | Arm_2 domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_025873 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 32.699879 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 26.890957 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 35.081436 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 30.592432 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 32.346169 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 44.575493 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 35.027084 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 31.336365 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 33.130863 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 34.376919 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 39.848549 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 36.200314 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 33.11771 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 27.751141 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 7.175513 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 9.675426 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 11.485451 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 18.31632 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 14.302902 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 17.11994 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 21.738216 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 16.415031 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 17.678499 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 18.643543 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 16.942104 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 22.338375 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 17.588661 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 21.413588 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 20.246277 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 18.146273 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 25.34189 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 21.348082 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 64.229996 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 34.529034 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 57.780193 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 40.63274 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 38.757999 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 35.643173 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 20.532909 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 10.400204 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 9.396541 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 16.872168 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 15.467995 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 44.42038 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 33.965961 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 14.726999 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 28.366304 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 21.44186 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 30.292805 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 24.647846 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg19059, jg30780, jg39855 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_16649 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah035577 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_2g027780 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg21631, Sbi_jg22183, Sbi_jg22187 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg16112 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00008722, GOSA_00008723 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl62662, Sgl67221, Sgl67284 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000018837, gene:ENSEOMG00000019414 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.2AG0018400, CQ.Regalona.r1.2BG0020070 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30016870, pistato.v30190650 |
| Apiaceae | Apium graveolens | 3 | Ag11G03224, Ag5G00369, Ag9G01282 |
| Arecaceae | Cocos nucifera | 6 | COCNU_01G006490, COCNU_01G006500, COCNU_11G011300 ... |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103701923, gene-LOC103702374, gene-LOC103705825 |
| Asparagaceae | Asparagus officinalis | 4 | AsparagusV1_01.2856.V1.1, AsparagusV1_01.3159.V1.1 ... |
| Asteraceae | Flaveria trinervia | 6 | Ftri13G26113, Ftri14G14961, Ftri15G12210, Ftri18G22247 ... |
| Brassicaceae | Arabidopsis thaliana | 2 | AT3G03440.1, AT4G12710.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10020852m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp3g02440.v2.2, Sp7g08880.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB01g059880.2N, BniB02p000249.2N, BniB07g060670.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq02G2242, Ceq08G0661 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl02G2332, Cgl08G0636 |
| Cymodoceaceae | Cymodocea nodosa | 4 | gene.Cymno01g04360, gene.Cymno02g14410, gene.Cymno06g09900 ... |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0309s00016.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate06g12540, gene.Thate09g17420 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-3010, nbisL1-mrna-6440 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG02.571, evm.TU.LG04.2287 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00001377, Pov_00029752 |
| Plumbaginaceae | Limonium bicolor | 4 | Lb1G01954, Lb1G03517, Lb2G10654, Lb7G34198 |
| Poaceae | Echinochloa crus-galli | 3 | AH02.1155, BH02.949, CH02.1061 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_1AG0007030, gene-QOZ80_1BG0055740 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.3HG0219670.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_049465, gene-QYE76_052479 |
| Poaceae | Oryza coarctata | 2 | Oco01G000590, Oco02G000690 |
| Poaceae | Oryza sativa | 1 | LOC_Os01g02200.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_03G092100, gene-BS78_K088800 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0207203 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr02G025010, Chr03G003030, Chr05G002770, Chr08G002000 |
| Poaceae | Thinopyrum elongatum | 1 | Tel3E01G016400 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC3AG002100, gene_TRIDC3BG001570 |
| Poaceae | Triticum aestivum | 4 | TraesCS3A02G009600.1, TraesCS3B02G012500.1 ... |
| Poaceae | Zea mays | 5 | Zm00001eb126230_P001, Zm00001eb146820_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-32306, nbis-gene-7147 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g7492, Zma_g9840 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG05.742, evm.TU.LG06.815, evm.TU.LG11.33 ... |
| Posidoniaceae | Posidonia oceanica | 3 | gene.Posoc03g08780, gene.Posoc04g04380, gene.Posoc04g21460 |
| Rhizophoraceae | Bruguiera sexangula | 4 | evm.TU.60356.3, evm.TU.Scaffold_3_RagTag.736 ... |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-16264, nbisL1-mrna-31683 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-1917, nbisL1-mrna-7466 |
| Rhizophoraceae | Ceriops zippeliana | 4 | nbisL1-mrna-10872, nbisL1-mrna-1114, nbisL1-mrna-15549 ... |
| Rhizophoraceae | Kandelia candel | 3 | evm.TU.utg000006l.948, evm.TU.utg000011l.833 ... |
| Rhizophoraceae | Kandelia obovata | 3 | Maker00008330, Maker00012394, Maker00014101 |
| Rhizophoraceae | Rhizophora apiculata | 3 | nbisL1-mrna-10480, nbisL1-mrna-13469, nbisL1-mrna-5234 |
| Rhizophoraceae | Rhizophora mangle | 3 | nbisL1-mrna-13160, nbisL1-mrna-15585, nbisL1-mrna-3962 |
| Salicaceae | Populus euphratica | 3 | populus_peu09641, populus_peu24880, populus_peu26868 |
| Solanaceae | Lycium barbarum | 4 | gene-LOC132617925, gene-LOC132618620, gene-LOC132621749 ... |
| Solanaceae | Solanum chilense | 3 | SOLCI000338600, SOLCI004560800, SOLCI004599200 |
| Solanaceae | Solanum pennellii | 4 | gene-LOC107008959, gene-LOC107009473, gene-LOC107013055 ... |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_2185, gene_6304 |
| Tamaricaceae | Tamarix chinensis | 3 | TC01G0184, TC03G0127, TC05G1374 |
| Zosteraceae | Zostera marina | 3 | Zosma01g06740.v3.1, Zosma02g25080.v3.1, Zosma06g18020.v3.1 |