Basic Information
Locus ID:
Ag1G00337
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
zinc-RING finger domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr1 | 30440739 | 30443048 | + | Ag1G00337 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.08 | 66,658.54 Da | 65.31 | 73.41 | -0.68 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16745 | RING-HC_AtRMA_like | 131 | 175 | 1.77135E-21 | - |
| Pfam | PF13920 | Zinc finger, C3HC4 type (RING finger) | 132 | 177 | 5.1E-8 | - |
| SUPERFAMILY | SSF57850 | RING/U-box | 131 | 184 | 2.43E-14 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 120 | 187 | 4.6E-15 | IPR013083 |
| SMART | SM00184 | ring_2 | 133 | 173 | 4.4E-8 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 133 | 174 | 12.887609 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 561 | 588 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 543 | 607 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 589 | 607 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 27 | - | - |
| Coils | Coil | Coil | 29 | 63 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G44410.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017227036.1 | PREDICTED: uncharacterized protein LOC108202928 isoform X1 [Daucus carota subsp. sativus] | 0 |
| P93030 | E3 ubiquitin-protein ligase RMA2 OS=Arabidopsis thaliana OX=3702 GN=RMA2 PE=1 SV=1 | 0 | |
| TrEMBL | A0A175YEC2 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_029602 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 27.596628 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 17.92004 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 22.806414 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 24.821217 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 22.989994 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 23.295731 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 26.131691 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 23.149744 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 18.200068 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 17.724651 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 20.70713 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 21.261515 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 16.762871 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 21.297911 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 7.802846 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 12.014157 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 10.070663 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 16.855431 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 13.95502 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 14.872121 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 16.793497 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 16.697163 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 15.556331 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 16.316349 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 14.731086 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 15.204744 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 20.030516 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 15.706115 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 15.134665 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 9.459534 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 9.163118 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 9.181117 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 31.760683 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 16.845205 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 29.623514 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 26.354952 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 14.886146 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 16.834608 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 11.678827 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 8.208645 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 6.823047 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 21.836243 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 26.46336 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 52.149406 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 43.083862 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 19.63311 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 33.221397 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 17.219606 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 15.150086 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 14.001367 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 6 | jg1657, jg26710, jg29802, jg31283, jg33299, jg4417 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_19109 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah021464 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_3g060020 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg59178, Sbi_jg63460 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg23441 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00012751 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl02589, Sgl07745 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000013640, gene:ENSEOMG00000032614 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.3AG0019490, CQ.Regalona.r1.3BG0020230 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30231120 |
| Apiaceae | Apium graveolens | 3 | Ag10G00394, Ag1G00337, Ag2G01452 |
| Asteraceae | Flaveria trinervia | 5 | Ftri11G05808, Ftri12G05104, Ftri12G25492, Ftri15G02173 ... |
| Brassicaceae | Arabidopsis thaliana | 3 | AT2G42030.1, AT2G44410.1, AT3G58030.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10001730m.g.v1.0, Thhalv10005986m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 3 | Sp4g24260.v2.2, Sp4g26480.v2.2, Sp5g04690.v2.2 |
| Brassicaceae | Brassica nigra | 5 | BniB01g002050.2N, BniB06g001230.2N, BniB06g055280.2N ... |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G1336 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-8718 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG01.1658, evm.TU.LG03.11 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00006870, Pov_00016869 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb5G29056 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG07.2074, evm.TU.LG15.1063 |
| Rhizophoraceae | Bruguiera sexangula | 4 | evm.TU.60400.14, evm.TU.Scaffold_1_RagTag.1254 ... |
| Rhizophoraceae | Carallia pectinifolia | 4 | nbisL1-mrna-4061, nbisL1-mrna-6358, nbisL1-mrna-6362 ... |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-13282, nbisL1-mrna-8130 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-22218, nbisL1-mrna-4187 |
| Rhizophoraceae | Kandelia candel | 3 | add.evm.TU.utg000009l.200, add.evm.TU.utg000016l.141 ... |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00003074, Maker00004989 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-19769, nbisL1-mrna-21781 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-13442, nbisL1-mrna-5625 |
| Salicaceae | Populus euphratica | 4 | populus_peu02215, populus_peu12316, populus_peu26073 ... |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132607526, gene-LOC132611383, gene-LOC132644427 |
| Solanaceae | Solanum chilense | 2 | SOLCI003356500, SOLCI007366700 |
| Solanaceae | Solanum pennellii | 3 | gene-LOC107008319, gene-LOC107021636, gene-LOC107031830 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.1979_chr01_+, STRG.21819_chr08_+ |
| Tamaricaceae | Tamarix chinensis | 3 | TC01G0002, TC05G2003, TC06G1576 |