Basic Information
Locus ID:
Ag9G01397
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
E3 ubiquitin-protein ligase BRE1-like
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr9 | 166655351 | 166670109 | - | Ag9G01397 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.28 | 99,453.63 Da | 43.95 | 90.89 | -0.64 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16499 | RING-HC_BRE1_like | 821 | 862 | 3.32496E-21 | - |
| Pfam | PF13920 | Zinc finger, C3HC4 type (RING finger) | 822 | 864 | 6.5E-9 | - |
| SUPERFAMILY | SSF57850 | RING/U-box | 822 | 866 | 2.87E-12 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 804 | 874 | 3.7E-15 | IPR013083 |
| SMART | SM00184 | ring_2 | 823 | 861 | 7.7E-5 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 823 | 861 | 10.77793 | IPR001841 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 838 | 847 | - | IPR017907 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 15 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 33 | - | - |
| Coils | Coil | Coil | 322 | 342 | - | - |
| Coils | Coil | Coil | 240 | 270 | - | - |
| Coils | Coil | Coil | 592 | 619 | - | - |
| Coils | Coil | Coil | 507 | 527 | - | - |
| Coils | Coil | Coil | 683 | 710 | - | - |
| Coils | Coil | Coil | 46 | 73 | - | - |
| Coils | Coil | Coil | 400 | 441 | - | - |
| Coils | Coil | Coil | 725 | 801 | - | - |
| Coils | Coil | Coil | 163 | 183 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G55250.5 | - | 0 |
| RefSeq | XP_017229710.1 | PREDICTED: E3 ubiquitin-protein ligase BRE1-like 2 isoform X1 [Daucus carota subsp. sativus] | 0 |
| Q9C895 | E3 ubiquitin-protein ligase BRE1-like 2 OS=Arabidopsis thaliana OX=3702 GN=HUB2 PE=1 SV=2 | 0 | |
| TrEMBL | A0A166GTT8 | E3 ubiquitin protein ligase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_001994 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 17.622372 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 13.59266 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 16.471972 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 16.352482 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 16.858269 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 21.281679 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 19.479473 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 21.150242 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 30.080107 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 31.341812 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 35.442677 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 32.653645 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 33.19548 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 27.272907 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 14.063272 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 12.551409 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 13.693998 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 17.966198 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 15.140809 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 15.211109 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 21.25716 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 18.583393 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 18.006046 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 16.761581 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 16.196102 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 21.311409 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 15.36675 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 16.881891 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 19.586115 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 5.528275 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 7.535027 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 4.609867 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 5.644018 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 6.993222 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 6.361258 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 4.109714 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 3.004654 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.87696 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 19.505079 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 14.115898 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 11.333491 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 16.630913 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 21.130119 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 34.264183 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 34.623711 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 18.086075 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 31.343325 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 18.88113 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 17.982836 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 17.865768 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg8032 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_1454 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah023809 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_1g008490 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg29380, Sbi_jg3599 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg6356 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00000817 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl11828, Sgl11985, Sgl15960 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000016022, gene:ENSEOMG00000032616 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.1AG0011360, CQ.Regalona.r1.1BG0014550 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30054410 |
| Apiaceae | Apium graveolens | 2 | Ag1G02128, Ag9G01397 |
| Arecaceae | Cocos nucifera | 2 | COCNU_05G008920, scaffold066378G000010 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103712920 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_03.1287.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri16G13670 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G55250.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10011229m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp1g40910.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB07g001170.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq05G2210 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl05G2315 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno09g01010 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0014s00007.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate08g04960, gene.Thate09g21110 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG09.434 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00011535 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb1G07796 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.3325, BH01.3731, CH01.3903 |
| Poaceae | Eleusine coracana subsp. coracana | 3 | gene-QOZ80_3BG0276090, gene-QOZ80_5AG0363040 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.3HG0315690.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_024927 |
| Poaceae | Oryza coarctata | 2 | Oco19G010530, Oco20G007590 |
| Poaceae | Oryza sativa | 1 | LOC_Os10g41590.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G324600 |
| Poaceae | Sporobolus alterniflorus | 1 | Chr01G024220 |
| Poaceae | Thinopyrum elongatum | 5 | Tel3E01G745800, Tel3E01G748300, Tel3E01G748400 ... |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC3AG066090, gene_TRIDC3AG066320 ... |
| Poaceae | Triticum aestivum | 7 | TraesCS3A02G467300.1, TraesCS3A02G469800.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb019800_P003 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g3445 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG04.1827, evm.TU.LG06.540 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc08g04770 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_7_RagTag.1733 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-19792 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-6364 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-22624 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000002l.28 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00011964 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-5809 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-12416 |
| Salicaceae | Populus euphratica | 3 | populus_peu04419, populus_peu35244, populus_peu35245 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132626044 |
| Solanaceae | Solanum chilense | 1 | SOLCI004429300 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107008556 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_8660 |
| Tamaricaceae | Tamarix chinensis | 1 | TC03G2950 |
| Zosteraceae | Zostera marina | 1 | Zosma01g10270.v3.1 |