Basic Information
Locus ID:
Ag4G00928
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Ubiquitin elongating factor core
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 94659661 | 94667792 | + | Ag4G00928 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.41 | 116,526.07 Da | 48.30 | 93.25 | -0.21 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16657 | RING-Ubox_UBE4A | 933 | 1001 | 1.92898E-40 | - |
| Pfam | PF10408 | Ubiquitin elongating factor core | 261 | 914 | 4.6E-213 | IPR019474 |
| Pfam | PF04564 | U-box domain | 931 | 1001 | 5.5E-30 | IPR003613 |
| SUPERFAMILY | SSF57850 | RING/U-box | 923 | 1003 | 2.03E-24 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 930 | 1008 | 7.6E-27 | IPR013083 |
| SMART | SM00504 | Ubox_2 | 934 | 997 | 3.8E-23 | IPR003613 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 930 | 1004 | 32.120502 | IPR003613 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1007 | 1029 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1006 | 1029 | - | - |
| Coils | Coil | Coil | 509 | 536 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
Cellular Component:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G15400.1 | U-box domain-containing protein. | 0 |
| RefSeq | XP_017241874.1 | PREDICTED: probable ubiquitin conjugation factor E4 [Daucus carota subsp. sativus] | 0 |
| Q9LF41 | Probable ubiquitin conjugation factor E4 OS=Arabidopsis thaliana OX=3702 GN=PUB1 PE=2 SV=1 | 0 | |
| TrEMBL | A0A166B3G8 | U-box domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_011063 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 39.867527 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 36.271931 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 34.002228 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 40.32214 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 40.954922 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 39.285084 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 38.635197 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 41.621109 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 60.225163 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 63.433548 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 64.588791 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 58.830822 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 65.197441 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 51.923271 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 19.34304 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 21.757397 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 17.657404 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 39.171444 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 20.024731 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 55.330544 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 67.537079 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 25.63924 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 27.548578 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 28.290672 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 26.753307 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 34.583279 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 24.720011 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 27.757332 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 29.683252 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 11.413146 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 11.605847 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 9.960393 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 48.050293 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 39.028683 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 67.034477 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 31.962612 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 12.952455 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 22.797791 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 23.972866 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 28.897701 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 18.687275 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 84.762505 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 52.843803 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 45.732994 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 38.745632 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 73.241234 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 42.128429 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 34.31744 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 31.408787 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 27.934719 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg40222 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_24664 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah032919 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_2g039970 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg29703, Sbi_jg43224 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg18673 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00004425 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl66483, Sgl70817 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000014116, gene:ENSEOMG00000022233 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.2AG0007040, CQ.Regalona.r1.2BG0008330 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30194160 |
| Apiaceae | Apium graveolens | 1 | Ag4G00928 |
| Arecaceae | Cocos nucifera | 2 | COCNU_05G002100, COCNU_13G006020 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103710234 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_08.1397.V1.1, AsparagusV1_08.1398.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri18G30065, Ftri1G03199 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G15400.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10012542m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g28690.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB02g047460.2N, BniB05g023290.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq08G0361 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl08G0320 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno11g05320 |
| Dunaliellaceae | Dunaliella salina | 3 | Dusal.0043s00001.v1.0, Dusal.0073s00002.v1.0 ... |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g05880 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-2209 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG02.249 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00023628, Pov_00027229 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb2G13063, Lb2G13074 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.3259, BH01.3646, CH01.3829 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0228770, gene-QOZ80_3BG0275040 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.7HG0737910.1.CDS1 |
| Poaceae | Lolium multiflorum | 6 | gene-QYE76_023489, gene-QYE76_048445, gene-QYE76_048616 ... |
| Poaceae | Oryza coarctata | 2 | Oco05G016410, Oco06G017060 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g31400.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G319200 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0105058 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr01G023720, Chr04G013630, Chr07G013050 |
| Poaceae | Thinopyrum elongatum | 2 | Tel4E01G303700, Tel7E01G809200 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC7AG066900, gene_TRIDC7BG060270 |
| Poaceae | Triticum aestivum | 3 | TraesCS7A02G477300.1.cds1, TraesCS7B02G378900.1.cds1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb020370_P002, Zm00001eb393280_P002 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-12211 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g986 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG05.1218, evm.TU.LG25.127 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc04g11480 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_6_RagTag.323 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-15181 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-14780 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-273 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000011l.182 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00006878 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-11776 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-17298 |
| Salicaceae | Populus euphratica | 3 | populus_peu00639, populus_peu09065, populus_peu09324 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132623930 |
| Solanaceae | Solanum chilense | 2 | SOLCI000248100, SOLCI001834600 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107009670, gene-LOC107021716 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_7278 |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G1150 |
| Zosteraceae | Zostera marina | 1 | Zosma06g09990.v3.1 |