Basic Information
Locus ID:
Ag4G02587
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Short Name:
UBC13
Description:
Belongs to the ubiquitin-conjugating enzyme family
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 304530644 | 304531230 | - | Ag4G02587 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.02 | 18,873.12 Da | 51.91 | 75.48 | -0.39 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00195 | UBCc | 19 | 161 | 3.74455E-63 | IPR000608 |
| Pfam | PF00179 | Ubiquitin-conjugating enzyme | 11 | 160 | 1.8E-51 | IPR000608 |
| SUPERFAMILY | SSF54495 | UBC-like | 5 | 164 | 1.14E-59 | IPR016135 |
| Gene3D | G3DSA:3.10.110.10 | Ubiquitin Conjugating Enzyme | 3 | 168 | 1.2E-64 | IPR016135 |
| SMART | SM00212 | ubc_7 | 9 | 166 | 1.2E-70 | - |
| ProSiteProfiles | PS50127 | Ubiquitin-conjugating (UBC) core domain profile. | 6 | 166 | 54.77771 | IPR000608 |
| ProSitePatterns | PS00183 | Ubiquitin-conjugating (UBC) active site signature. | 80 | 95 | - | IPR023313 |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G55380.1 | ubiquitin-conjugating enzyme 14. | 0 |
| RefSeq | XP_017250346.1 | PREDICTED: ubiquitin-conjugating enzyme E2 7-like [Daucus carota subsp. sativus] | 0 |
| P42747 | Ubiquitin-conjugating enzyme E2 14 OS=Arabidopsis thaliana OX=3702 GN=UBC14 PE=1 SV=1 | 0 | |
| TrEMBL | A0A164ZHD2 | UBC core domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_019169 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 0.446124 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 1.510992 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 5.42809 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 4.920485 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 7.307638 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 10.116221 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 5.660014 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 6.60546 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 0 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 0.539833 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 0.232056 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 6.545036 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 13.334229 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 9.918091 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.637268 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 1.920001 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0.702183 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 0.467333 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 0 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 3.178611 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 1.102836 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 0.081648 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 0.64709 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 0.676478 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 0 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 1.511715 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 0.658327 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 0 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 1.166029 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.111472 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.144795 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0.666338 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 4.270243 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 0.03532 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 2.202218 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.495476 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.854884 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 0 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0.163978 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.097414 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 29.047335 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 2.987984 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 0.549551 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 0.250991 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 13.798809 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 0.585847 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 3.087418 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 1.412793 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 1.599284 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg34241, jg9913 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_7018, gene_7019 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah028066 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_7g174200, BVRB_7g174210 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg1796, Sbi_jg1801, Sbi_jg34724, Sbi_jg34725 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg2955, Seu_jg2959 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00003167, GOSA_00003168 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl72992, Sgl72994, Sgl76531, Sgl76532 |
| Amaranthaceae | Chenopodium album | 6 | gene:ENSEOMG00000004891, gene:ENSEOMG00000006623 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.7AG0002500, CQ.Regalona.r1.7AG0002510 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30060010, pistato.v30175170 |
| Apiaceae | Apium graveolens | 3 | Ag10G01130, Ag3G01390, Ag4G02587 |
| Arecaceae | Cocos nucifera | 4 | COCNU_04G002000, COCNU_12G007600, scaffold011719G000010 ... |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103696704, gene-LOC103716521, gene-LOC103723024 |
| Asparagaceae | Asparagus officinalis | 4 | AsparagusV1_02.158.V1.1, AsparagusV1_07.231.V1.1 ... |
| Asteraceae | Flaveria trinervia | 2 | Ftri8G25790, Ftri9G03188 |
| Brassicaceae | Arabidopsis thaliana | 3 | AT3G46460.1, AT3G55380.2, AT5G59300.1 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10002692m.g.v1.0, Thhalv10010846m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 3 | Sp5g07090.v2.2, Sp5g15220.v2.2, Sp6g20970.v2.2 |
| Brassicaceae | Brassica nigra | 4 | BniB02g038860.2N, BniB06g056840.2N, BniB06g064940.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq02G0754, Ceq08G2212 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl02G0764, Cgl08G2366 |
| Cymodoceaceae | Cymodocea nodosa | 3 | gene.Cymno02g19620, gene.Cymno03g00470, gene.Cymno04g15200 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0327s00011.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate06g01050 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG02.1606, evm.TU.LG09.1302 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00027998, Pov_00040108 |
| Plumbaginaceae | Limonium bicolor | 6 | Lb3G20068, Lb6G30393, Lb6G31674, Lb6G31675, Lb7G33179 ... |
| Poaceae | Echinochloa crus-galli | 6 | AH02.3823, AH05.2146, BH02.3835, BH05.2278, BH07.4144 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_1AG0039350, gene-QOZ80_1BG0089370 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.1HG0073330.1, HORVU.MOREX.r3.3HG0302880.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_014346, gene-QYE76_056256 |
| Poaceae | Oryza coarctata | 4 | Oco01G024500, Oco02G025370, Oco09G011500, Oco10G011250 |
| Poaceae | Oryza sativa | 2 | LOC_Os01g62244.1, LOC_Os05g38550.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_03G330600, gene-BS78_09G168300 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0405691, Pt_Chr0504751 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr01G019150, Chr02G005110, Chr05G028280, Chr18G011270 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel1E01G462600, Tel3E01G572600 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC1AG042610, gene_TRIDC1BG048350 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS1A02G285200.1, TraesCS1B02G294400.2 ... |
| Poaceae | Zea mays | 4 | Zm00001eb148520_P002, Zm00001eb289700_P002 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-11458, nbis-gene-24145 |
| Poaceae | Zoysia macrostachya | 3 | Zma_g27066, Zma_g28384, Zma_g8969 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG19.1181, evm.TU.LG24.1184 |
| Posidoniaceae | Posidonia oceanica | 3 | gene.Posoc01g34270, gene.Posoc02g01610, gene.Posoc07g14960 |
| Rhizophoraceae | Bruguiera sexangula | 4 | evm.TU.60437.13, evm.TU.60438.14 ... |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-30212 |
| Rhizophoraceae | Ceriops tagal | 3 | nbisL1-mrna-19672, nbisL1-mrna-21431, nbisL1-mrna-7662 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-16194, nbisL1-mrna-19548, nbisL1-mrna-4521 |
| Rhizophoraceae | Kandelia candel | 3 | evm.TU.utg000008l.957, evm.TU.utg000015l.481 ... |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00015300, Maker00017945 |
| Rhizophoraceae | Rhizophora apiculata | 3 | nbisL1-mrna-2096, nbisL1-mrna-4399, nbisL1-mrna-5576 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-11773, nbisL1-mrna-9467 |
| Salicaceae | Populus euphratica | 4 | populus_peu06413, populus_peu06414, populus_peu20251 ... |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132613744, gene-LOC132629842, gene-LOC132640189 |
| Solanaceae | Solanum chilense | 4 | SOLCI000909600, SOLCI001057400, SOLCI001057500 ... |
| Solanaceae | Solanum pennellii | 4 | gene-LOC107015546, gene-LOC107020903, gene-LOC107020904 ... |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_5896, gene_9707 |
| Tamaricaceae | Tamarix chinensis | 2 | TC02G3165, TC06G0940 |
| Zosteraceae | Zostera marina | 2 | Zosma01g16520.v3.1, Zosma04g15230.v3.1 |