Basic Information
Locus ID:
Ag6G01700
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
E3 ubiquitin protein ligase RIN2-like
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr6 | 102886930 | 102894168 | + | Ag6G01700 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.57 | 64,407.79 Da | 40.67 | 106.58 | 0.22 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd14422 | CUE_RIN3_plant | 542 | 579 | 1.2655E-19 | IPR035667 |
| Pfam | PF02845 | CUE domain | 545 | 579 | 1.6E-5 | IPR003892 |
| Pfam | PF13639 | Ring finger domain | 335 | 379 | 2.8E-8 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 323 | 385 | 9.42E-19 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 313 | 386 | 2.1E-18 | IPR013083 |
| Gene3D | G3DSA:1.10.8.10 | - | 540 | 580 | 4.0E-15 | - |
| SMART | SM00184 | ring_2 | 337 | 378 | 2.1E-6 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 337 | 379 | 12.54829 | IPR001841 |
| ProSiteProfiles | PS51140 | CUE domain profile. | 541 | 581 | 13.061211 | IPR003892 |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G25230.1 | RPM1 interacting protein 2. RPM1 interacting protein 2, has a CUE domain which is sufficient for the interaction with RPM1.Positive regulator of RPM1 and PRS2 mediated hypersensitive response.Functions as ubiquitin ligase and binds to RPM1. | 0 |
| RefSeq | XP_017252864.1 | PREDICTED: E3 ubiquitin protein ligase RIN2 isoform X1 [Daucus carota subsp. sativus] | 0 |
| Q8VYC8 | E3 ubiquitin protein ligase RIN2 OS=Arabidopsis thaliana OX=3702 GN=RIN2 PE=1 SV=1 | 0 | |
| TrEMBL | A0A164YR22 | E3 ubiquitin protein ligase RIN2 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_018107 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 24.019547 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 25.926056 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 25.154221 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 26.047529 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 26.00041 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 30.517101 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 29.56959 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 36.789288 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 28.201767 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 28.738605 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 30.664877 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 31.893631 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 30.056934 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 26.986526 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 24.463053 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 27.444912 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 23.168629 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 29.237801 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 24.324572 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 34.941776 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 40.514439 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 40.979443 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 37.046825 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 38.746628 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 35.609535 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 32.161026 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 28.868752 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 28.593475 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 32.82666 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 5.706669 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 5.771309 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 6.315865 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 16.014771 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 17.938618 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 17.983767 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 7.83175 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 3.102213 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 4.267871 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 10.412697 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 9.605596 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 6.70388 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 46.229431 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 29.96114 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 14.822875 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 21.559336 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 39.300171 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 31.239971 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 31.461533 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 37.561947 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 34.201401 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg14106, jg2414 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_16036 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg15342, Sbi_jg56160 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg26632 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00020243, GOSA_00020244 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl02182, Sgl07336 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000001113, gene:ENSEOMG00000030014 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.3AG0008700, CQ.Regalona.r1.3BG0008890 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30178730, pistato.v30180990 |
| Apiaceae | Apium graveolens | 1 | Ag6G01700 |
| Arecaceae | Cocos nucifera | 2 | COCNU_10G004040, scaffold052971G000010 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103705135, gene-LOC103712148 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_04.3528.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri6G26303 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT4G25230.1, AT5G51450.2 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10014220m.g.v1.0, Thhalv10024774m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp6g13610.v2.2, Sp7g23250.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB02g081680.2N, BniB03g012850.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G1981 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl02G2055 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno15g02090 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g05090 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-11444 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG01.2340 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00012440 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb0G37600, Lb1G04513, Lb3G20945 |
| Poaceae | Echinochloa crus-galli | 3 | AH03.3003, BH03.3171, CH03.3367 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_7AG0567330, gene-QOZ80_7BG0598800 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0146750.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_041317 |
| Poaceae | Oryza coarctata | 2 | Oco13G007320, Oco14G007930 |
| Poaceae | Oryza sativa | 1 | LOC_Os07g30100.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_02G279500 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0306547 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr24G007210, Chr27G010860, Chr28G006590 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G421700 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG031260, gene_TRIDC2BG035690 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G227400.2, TraesCS2B02G255300.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb105020_P001, Zm00001eb321470_P002 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-1026, nbis-gene-38451 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g5149, Zma_g6435 |
| Portulacaceae | Portulaca oleracea | 1 | evm.TU.LG11.1506 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc07g03940 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_4_RagTag.233 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-29115 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-6861 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-2061 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000008l.148 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00001249 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-2422 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-6180 |
| Salicaceae | Populus euphratica | 3 | populus_peu03364, populus_peu34212, populus_peu34213 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132638901 |
| Solanaceae | Solanum chilense | 1 | SOLCI004049200 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107023515 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_4096 |
| Tamaricaceae | Tamarix chinensis | 1 | TC06G2000 |
| Zosteraceae | Zostera marina | 2 | Zosma02g05590.v3.1, Zosma06g03640.v3.1 |