Basic Information
Locus ID:
Ag1G00213
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Ring finger domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr1 | 13819389 | 13824583 | - | Ag1G00213 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.66 | 66,613.91 Da | 55.42 | 77.17 | -0.68 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16448 | RING-H2 | 11 | 59 | 3.36003E-11 | - |
| Pfam | PF13639 | Ring finger domain | 11 | 59 | 9.6E-8 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 9 | 65 | 7.07E-13 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 7 | 72 | 7.0E-12 | IPR013083 |
| SMART | SM00184 | ring_2 | 11 | 58 | 1.6E-5 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 11 | 59 | 12.917115 | IPR001841 |
| Coils | Coil | Coil | 245 | 279 | - | - |
| Coils | Coil | Coil | 87 | 107 | - | - |
| Coils | Coil | Coil | 115 | 139 | - | - |
| Coils | Coil | Coil | 157 | 177 | - | - |
KEGG Pathway
Pathway:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G01270.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017233995.1 | PREDICTED: uncharacterized protein LOC108208032 [Daucus carota subsp. sativus] | 0 |
| TrEMBL | A0A166E582 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_006947 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 1.251197 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 0.237132 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 0.121625 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 0.372771 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 0.430629 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 0.135692 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 0.26291 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 0.084114 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 6.402115 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 7.139466 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 7.893731 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 6.60036 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 5.557425 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 3.589583 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.868282 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0.681702 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0.889242 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 1.003308 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 0.355643 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 0.935965 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 1.384291 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 2.434211 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 2.59125 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 2.704311 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 2.998818 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 1.360663 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 1.257948 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 0.875891 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 1.128471 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.43258 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.110199 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.134025 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 2.345828 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 0 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.170531 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.316275 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 3.201082 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0.145709 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 1.159567 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0.761795 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 0.976309 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 0.545877 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 1.419454 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 1.103868 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 3.81935 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 2.951201 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 2.209949 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg11087, jg1957 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_23584 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah022939 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_1g004030 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg4572, Sbi_jg49261 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg5979 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00000501 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl11018, Sgl16426 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000012842, gene:ENSEOMG00000034091 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.1AG0003430, CQ.Regalona.r1.2BG0025390 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30004990 |
| Apiaceae | Apium graveolens | 1 | Ag1G00213 |
| Arecaceae | Cocos nucifera | 1 | COCNU_09G002350 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103712436 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_08.275.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri15G19764, Ftri3G12159 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT4G01245.1, AT4G01270.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10029490m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g00860.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB08g041490.2N, BniB08g041550.2N, BniB08g043120.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G1194 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl02G1235 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno03g07320 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate08g06030 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG04.800 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00039269 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb2G11133 |
| Poaceae | Eleusine coracana subsp. coracana | 1 | gene-QOZ80_8BG0644930 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.7HG0700930.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_032504, gene-QYE76_032521 |
| Poaceae | Oryza coarctata | 2 | Oco15G002070, Oco16G002110 |
| Poaceae | Oryza sativa | 1 | LOC_Os08g05560.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_07G042700 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr16G001160, Chr17G001100, Chr20G010760, Chr29G011600 |
| Poaceae | Thinopyrum elongatum | 1 | Tel7E01G525500 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC7AG042460, gene_TRIDC7BG033590 |
| Poaceae | Triticum aestivum | 3 | TraesCS7A02G304100.2, TraesCS7B02G204500.3 ... |
| Poaceae | Zea mays | 1 | Zm00001eb416420_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-41571 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g23611 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG04.2230, evm.TU.LG06.76 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc02g17920 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_5_RagTag.447 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-10791, nbisL1-mrna-10807 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-6532 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-10386 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000006l.462 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00013144 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-10279 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-7204 |
| Salicaceae | Populus euphratica | 1 | populus_peu27644 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132640656, gene-LOC132645528 |
| Solanaceae | Solanum chilense | 2 | SOLCI005420800, SOLCI006486200 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107007582, gene-LOC107018464 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.28986_chr11_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC03G2194 |