Basic Information
Locus ID:
Ag10G00305
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Short Name:
HUB1
Description:
E3 ubiquitin-protein ligase BRE1-like
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr10 | 79598315 | 79617941 | + | Ag10G00305 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.05 | 99,289.29 Da | 47.85 | 89.06 | -0.65 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16499 | RING-HC_BRE1_like | 814 | 855 | 1.23959E-16 | - |
| Pfam | PF13920 | Zinc finger, C3HC4 type (RING finger) | 814 | 856 | 3.1E-10 | - |
| SUPERFAMILY | SSF57850 | RING/U-box | 808 | 867 | 1.24E-14 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 798 | 868 | 4.9E-19 | IPR013083 |
| SMART | SM00184 | ring_2 | 816 | 854 | 2.2E-7 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 816 | 854 | 11.840146 | IPR001841 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 831 | 840 | - | IPR017907 |
| Coils | Coil | Coil | 570 | 604 | - | - |
| Coils | Coil | Coil | 40 | 67 | - | - |
| Coils | Coil | Coil | 233 | 263 | - | - |
| Coils | Coil | Coil | 745 | 793 | - | - |
| Coils | Coil | Coil | 499 | 519 | - | - |
| Coils | Coil | Coil | 314 | 334 | - | - |
| Coils | Coil | Coil | 406 | 426 | - | - |
| Coils | Coil | Coil | 354 | 374 | - | - |
| Coils | Coil | Coil | 286 | 306 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G44950.1 | histone mono-ubiquitination 1. The gene encodes one of two orthologous E3 ubiquitin ligases in Arabidopsis that are involved in monoubiquitination of histone H2B. | 0 |
| RefSeq | XP_017248284.1 | PREDICTED: E3 ubiquitin-protein ligase BRE1-like 1 [Daucus carota subsp. sativus] | 0 |
| Q8RXD6 | E3 ubiquitin-protein ligase BRE1-like 1 OS=Arabidopsis thaliana OX=3702 GN=HUB1 PE=1 SV=1 | 0 | |
| TrEMBL | A0A165A203 | E3 ubiquitin protein ligase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_015857 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 18.212456 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 12.505073 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 14.912618 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 16.320164 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 15.678881 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 19.685368 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 15.005232 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 17.989206 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 29.924156 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 29.017765 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 33.039188 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 34.433559 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 30.493969 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 24.381723 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 7.10302 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 7.455733 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 7.382883 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 8.850456 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 7.891222 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 7.869338 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 10.176914 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 11.734056 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 12.097013 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 12.071338 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 11.455065 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 10.55281 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 9.824112 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 10.943696 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 11.22957 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 4.201709 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 5.477968 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 4.398126 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 6.459076 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 8.612137 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 6.598612 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 3.995714 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 2.965905 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.747761 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 17.820089 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 8.396201 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 6.018649 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 10.921604 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 12.539845 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 49.631081 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 39.053123 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 11.787221 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 23.13311 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 17.986324 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 20.643471 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 19.66806 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg29195 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_1309 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah023277 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg29201, Sbi_jg3434 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg6526 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00000200 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl11377, Sgl16757 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000013194, gene:ENSEOMG00000013313 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.1AG0006940, CQ.Regalona.r1.2BG0022570 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30002150 |
| Apiaceae | Apium graveolens | 1 | Ag10G00305 |
| Arecaceae | Cocos nucifera | 2 | COCNU_07G005340, scaffold008284G000050 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103711663, gene-LOC103717272, gene-LOC120110804 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_04.3293.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri11G24382 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G44950.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10001306m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g27030.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB01g001750.2N, BniB06g003390.2N, BniB06g003410.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq05G1093 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl05G1113 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno02g15520, gene.Cymno02g15530 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g16040 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG04.110 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00014973 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb5G28107 |
| Poaceae | Echinochloa crus-galli | 3 | AH06.2546, BH06.2350, CH06.2568 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_4AG0321460, gene-QOZ80_4BG0357190 |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.3HG0301020.1, HORVU.MOREX.r3.6HG0600810.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_024160 |
| Poaceae | Oryza coarctata | 2 | Oco07G012360, Oco08G012070 |
| Poaceae | Oryza sativa | 1 | LOC_Os04g46450.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_10G249500 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0203948, Pt_Chr0204019 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr23G015400, Chr26G004430, Chr30G012380 |
| Poaceae | Thinopyrum elongatum | 2 | Tel3E01G587800, Tel6E01G469100 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC3AG053120, gene_TRIDC3BG059760 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS3A02G369300.2, TraesCS3B02G401200.2 ... |
| Poaceae | Zea mays | 2 | Zm00001eb226640_P005, Zm00001eb273100_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-44976 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g19513 |
| Portulacaceae | Portulaca oleracea | 3 | evm.TU.LG19.721, evm.TU.LG19.722, evm.TU.LG24.709 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc04g19220 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_8_RagTag.1512 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-8330, nbisL1-mrna-8409 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-18385, nbisL1-mrna-2684 |
| Rhizophoraceae | Ceriops zippeliana | 4 | nbisL1-mrna-15166, nbisL1-mrna-15168, nbisL1-mrna-15169 ... |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000018l.119, evm.TU.utg000028l.132 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00003594 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-8094, nbisL1-mrna-9461 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-22765, nbisL1-mrna-9778 |
| Salicaceae | Populus euphratica | 2 | populus_peu31840, populus_peu31841 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132627063 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107004748 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_15743, gene_855 |
| Tamaricaceae | Tamarix chinensis | 1 | TC03G2587 |
| Zosteraceae | Zostera marina | 1 | Zosma06g20670.v3.1 |