Basic Information
Locus ID:
Ag5G01430
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING-H2 finger protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 124511063 | 124511736 | - | Ag5G01430 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.88 | 22,727.06 Da | 71.33 | 94.50 | 0.13 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13639 | Ring finger domain | 146 | 189 | 9.8E-13 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 146 | 193 | 4.95E-19 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 109 | 193 | 1.3E-19 | IPR013083 |
| SMART | SM00184 | ring_2 | 147 | 188 | 1.9E-5 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 147 | 189 | 12.518784 | IPR001841 |
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G11110.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017217196.1 | PREDICTED: RING-H2 finger protein ATL66-like [Daucus carota subsp. sativus] | 0 |
| Q9SRM0 | RING-H2 finger protein ATL66 OS=Arabidopsis thaliana OX=3702 GN=ATL66 PE=2 SV=1 | 0 | |
| TrEMBL | A0A164TM71 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_024816 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 1.130509 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 0.512523 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 0.541858 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 0.595231 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 0.152482 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 0 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 0 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 0.092993 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 10.429949 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 9.820894 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 11.57618 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 8.741473 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 8.715703 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 11.655121 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 3.009633 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 1.408938 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 3.682564 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 6.15314 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 10.29034 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 4.290536 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 5.501032 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 5.559264 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 3.351321 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 3.061954 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 4.11369 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 7.287255 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 10.418378 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 7.755229 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 10.544154 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 7.681865 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 8.217036 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 9.473974 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 9.951016 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 6.909219 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 9.257349 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 18.402431 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 5.64516 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 7.910888 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 4.285875 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 6.212584 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 5.540199 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 1.408291 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 3.096721 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 8.500319 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 7.116818 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 1.133908 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 9.977798 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 5.039246 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 5.979595 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 3.473365 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 5 | jg10041, jg14255, jg2570, jg32191, jg34116 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_17014 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah035347 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_2g023480 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg21464, Sbi_jg22352 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg16279 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00016478 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl24617, Sgl29770, Sgl62826, Sgl67441 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000018868, gene:ENSEOMG00000020768 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.1BG0020070, CQ.Regalona.r1.2AG0021850 ... |
| Apiaceae | Apium graveolens | 1 | Ag5G01430 |
| Arecaceae | Cocos nucifera | 1 | COCNU_04G003410 |
| Asteraceae | Flaveria trinervia | 2 | Ftri17G23399, Ftri6G22186 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G11110.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10022203m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g09430.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB01g053930.2N, BniB07g025140.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G0103 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl02G0114 |
| Cymodoceaceae | Cymodocea nodosa | 4 | gene.Cymno02g09540, gene.Cymno04g16810, gene.Cymno05g18010 ... |
| Hydrocharitaceae | Thalassia testudinum | 3 | gene.Thate01g32320, gene.Thate06g02680, gene.Thate06g03270 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-3644, nbisL1-mrna-3932 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00011779, Pov_00040548 |
| Poaceae | Echinochloa crus-galli | 7 | AH02.3760, AH05.2084, BH02.3770, BH05.2218, BH07.4086 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_1AG0038720, gene-QOZ80_1BG0088740 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.1HG0071970.1.CDS1 ... |
| Poaceae | Lolium multiflorum | 4 | gene-QYE76_014118, gene-QYE76_014119, gene-QYE76_014120 ... |
| Poaceae | Oryza coarctata | 1 | Oco10G011890 |
| Poaceae | Oryza sativa | 3 | LOC_Os01g61470.1, LOC_Os05g39260.1, LOC_Os11g02250.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_09G172900 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr01G018760, Chr02G005640, Chr05G027750, Chr18G011720 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel1E01G478500, Tel3E01G562100 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC1AG043930, gene_TRIDC1BG049760 ... |
| Poaceae | Triticum aestivum | 7 | TraesCS1A02G295900.1.cds1, TraesCS1D02G296300.1.cds1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb290050_P001, Zm00001eb351800_P001 |
| Poaceae | Zoysia japonica | 3 | nbis-gene-11517, nbis-gene-14199, nbis-gene-24187 |
| Poaceae | Zoysia macrostachya | 3 | Zma_g27030, Zma_g28412, Zma_g8929 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG05.148, evm.TU.LG10.2, evm.TU.LG17.971 ... |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc01g37280, gene.Posoc07g13900 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_4_RagTag.937 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-25891 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-16218 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-1465 |
| Rhizophoraceae | Kandelia candel | 1 | add.evm.TU.utg000008l.229 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00001511 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-17499 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-9276 |
| Salicaceae | Populus euphratica | 1 | populus_peu06572 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132614271 |
| Solanaceae | Solanum chilense | 1 | SOLCI001110300 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107022343 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.21580_chr08_+ |
| Zosteraceae | Zostera marina | 3 | Zosma02g21740.v3.1, Zosma06g27080.v3.1, Zosma06g29200.v3.1 |