Basic Information
Locus ID:
Ag4G02381
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING-H2 zinc finger domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 297763412 | 297765203 | - | Ag4G02381 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.24 | 24,505.39 Da | 24.67 | 100.57 | 0.30 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16454 | RING-H2_PA-TM-RING | 183 | 225 | 2.35704E-16 | - |
| Pfam | PF13639 | Ring finger domain | 182 | 225 | 4.0E-13 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 182 | 228 | 2.04E-19 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 146 | 228 | 1.6E-20 | IPR013083 |
| SMART | SM00184 | ring_2 | 183 | 224 | 2.8E-7 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 183 | 225 | 12.533537 | IPR001841 |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G20395.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017251764.1 | PREDICTED: NEP1-interacting protein 1 [Daucus carota subsp. sativus] | 0 |
| Q8GT74 | NEP1-interacting protein 2 OS=Arabidopsis thaliana OX=3702 GN=NIP2 PE=1 SV=1 | 0 | |
| TrEMBL | A0A164XQ56 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_016706 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 28.929789 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.835934 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 3.452986 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 3.085925 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 0.6093 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 0.405302 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 5.181117 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 1.128392 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 5.003977 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 3.676107 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 4.543108 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 3.184182 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 2.301788 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 1.612688 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.711911 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 1.129325 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0.34483 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 7.974248 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 8.65164 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 13.557965 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 5.336058 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 25.612782 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 29.015179 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 11.454677 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 13.093183 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 6.69046 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 15.359848 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 3.327863 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 3.876716 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.226572 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 2.460027 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 2.417628 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0.40083 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 22.327143 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 0 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0.148919 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.434678 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 8.887607 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 15.508019 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 16.094332 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 4.448279 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 23.266943 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 1.135744 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 1.323302 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 1.899473 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 0.146794 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 6.287787 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 11.567735 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 18.951519 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg19367, jg21513, jg38375 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_22026 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah017531 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_8g186290 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg40144, Sbi_jg50064 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg1712 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00011319 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl46312, Sgl51026 |
| Amaranthaceae | Chenopodium album | 1 | gene:ENSEOMG00000012333 |
| Amaranthaceae | Chenopodium quinoa | 1 | CQ.Regalona.r1.8AG0001800 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30156660, pistato.v30158280 |
| Apiaceae | Apium graveolens | 1 | Ag4G02381 |
| Arecaceae | Cocos nucifera | 1 | COCNU_14G007770 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103719115 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_03.1248.V1.1 |
| Asteraceae | Flaveria trinervia | 3 | Ftri14G33627, Ftri15G23591, Ftri3G23795 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G20395.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10022113m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g18410.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB01g043480.2N |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno17g05560 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 3 | nbisL1-mrna-9100, nbisL1-mrna-9217, nbisL1-mrna-9218 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG05.1868 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb4G22986 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG01.1873, evm.TU.LG14.1063, evm.TU.LG18.862 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc10g02870 |
| Salicaceae | Populus euphratica | 1 | populus_peu00284 |
| Solanaceae | Solanum chilense | 1 | SOLCI001317900 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107005628 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_17575 |
| Zosteraceae | Zostera marina | 1 | Zosma05g20850.v3.1 |