Basic Information
Locus ID:
Ag11G04598
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
zinc finger
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr11 | 188110420 | 188118486 | + | Ag11G04598 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.80 | 56,382.50 Da | 53.03 | 55.15 | -0.79 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13639 | Ring finger domain | 462 | 506 | 7.3E-11 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 444 | 507 | 2.31E-16 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 433 | 509 | 5.4E-15 | IPR013083 |
| SMART | SM00184 | ring_2 | 463 | 505 | 7.6E-7 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 463 | 506 | 12.371254 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 337 | 355 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 361 | 382 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 305 | 322 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 305 | 382 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G37150.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017235756.1 | PREDICTED: uncharacterized protein LOC108209391 [Daucus carota subsp. sativus] | 0 |
| O49500 | E3 ubiquitin-protein ligase MBR2 OS=Arabidopsis thaliana OX=3702 GN=MBR2 PE=1 SV=1 | 0 | |
| TrEMBL | A0A166DSF5 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_006455 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 7.010814 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 7.522052 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 8.377131 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 9.751392 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 8.459888 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 12.039546 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 8.4578 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 10.983216 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 9.004403 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 10.54203 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 10.469275 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 11.994165 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 10.775069 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 10.019152 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 5.6651 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 5.560171 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 6.493546 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 7.65764 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 5.574929 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 11.122605 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 13.752206 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 13.011451 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 15.00901 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 11.168725 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 11.855005 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 8.918137 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 7.417682 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 7.523173 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 9.146709 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.875904 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 2.924254 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 1.839525 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 9.335742 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 13.251698 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 10.594473 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 5.54469 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 3.594406 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.937492 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 4.381691 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 4.205809 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 2.61095 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 22.983578 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 22.416903 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 26.300306 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 24.561974 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 13.325182 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 20.012499 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 23.516378 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 65.002579 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 47.630638 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg14942, jg3457 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_20061, gene_8717 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah030302 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_7g162360 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg2075, Sbi_jg34442 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg2696 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00005799 |
| Amaranthaceae | Suaeda glauca | 6 | Sgl71178, Sgl71197, Sgl71198, Sgl71200, Sgl74768, Sgl74770 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000005860, gene:ENSEOMG00000036977 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7AG0017500, CQ.Regalona.r1.7BG0018020 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30171270, pistato.v30272330 |
| Apiaceae | Apium graveolens | 2 | Ag11G04598, Ag2G00694 |
| Arecaceae | Cocos nucifera | 3 | COCNU_04G003020, COCNU_04G014190, COCNU_12G006790 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103709679, gene-LOC103718126 |
| Asparagaceae | Asparagus officinalis | 4 | AsparagusV1_02.248.V1.1, AsparagusV1_05.528.V1.1 ... |
| Asteraceae | Flaveria trinervia | 3 | Ftri11G07970, Ftri16G26158, Ftri17G19891 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G37150.3 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10016485m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g19460.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB01g007590.2N, BniB08g023520.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq02G0629, Ceq08G1306 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl02G0643, Cgl08G1332 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno04g16400, gene.Cymno05g15580 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g17440 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-5939 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG01.1409 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00006344 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb4G26138 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG16.1041, evm.TU.LG20.1451 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc01g36370, gene.Posoc07g14170 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_1_RagTag.1575, evm.TU.Scaffold_2_RagTag.859 |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-4342, nbisL1-mrna-5279, nbisL1-mrna-5375 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-18796, nbisL1-mrna-21035 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-3890, nbisL1-mrna-9971 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000009l.868, evm.TU.utg000016l.558 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00005089, Maker00016782 |
| Rhizophoraceae | Rhizophora apiculata | 3 | nbisL1-mrna-12644, nbisL1-mrna-12645, nbisL1-mrna-7731 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-323, nbisL1-mrna-5876 |
| Salicaceae | Populus euphratica | 2 | populus_peu06290, populus_peu20122 |
| Solanaceae | Lycium barbarum | 4 | gene-LOC132630077, gene-LOC132630210, gene-LOC132633687 ... |
| Solanaceae | Solanum chilense | 1 | SOLCI001940700 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107031267 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.27383_chr04_+, gene_18106 |
| Tamaricaceae | Tamarix chinensis | 3 | TC02G1279, TC02G1867, TC07G0673 |