Basic Information
Locus ID:
Ag2G02640
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING finger and transmembrane domain-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr2 | 311070571 | 311075988 | - | Ag2G02640 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.66 | 33,486.14 Da | 43.49 | 79.36 | -0.53 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16532 | RING-HC_RNFT1_like | 211 | 250 | 7.9123E-26 | - |
| Pfam | PF13920 | Zinc finger, C3HC4 type (RING finger) | 210 | 252 | 1.6E-10 | - |
| SUPERFAMILY | SSF57850 | RING/U-box | 207 | 255 | 7.07E-18 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 192 | 293 | 1.7E-18 | IPR013083 |
| SMART | SM00184 | ring_2 | 212 | 249 | 7.8E-8 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 212 | 250 | 13.610506 | IPR001841 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 227 | 236 | - | IPR017907 |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G01960.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017249748.1 | PREDICTED: RING finger and transmembrane domain-containing protein 1-like [Daucus carota subsp. sativus] | 0 |
| Q5M7Z0 | E3 ubiquitin-protein ligase RNFT1 OS=Homo sapiens OX=9606 GN=RNFT1 PE=1 SV=2 | 0 | |
| TrEMBL | A0A164YPC4 | ACP_syn_III_C domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_018049 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 11.133062 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.845068 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 9.862795 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 7.324121 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 9.737829 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 6.000489 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 8.271441 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 2.94384 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 13.013605 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 13.075348 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 14.257962 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 15.955107 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 15.356256 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 10.973457 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 24.314674 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 24.917456 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 18.286951 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 16.629053 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 13.566229 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 14.848845 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 13.909348 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 24.445536 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 24.000801 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 21.265505 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 23.592695 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 16.625681 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 16.492149 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 14.559974 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 20.572891 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 1.302911 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 1.346443 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 2.167698 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 3.331215 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 5.667613 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 3.552167 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 1.988406 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.205946 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.748905 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 7.420464 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 4.945093 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 2.194945 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 26.413086 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 26.484503 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 7.066748 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 12.379064 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 28.054657 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 17.550774 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 11.544276 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 13.789036 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 14.552919 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 5 | jg10093, jg14173, jg14675, jg2483, jg34065 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_20445 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah031583 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_7g156600 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg2104, Sbi_jg34409 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg2665 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00005828 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl71155, Sgl74737 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000005012, gene:ENSEOMG00000036082 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7AG0023370, CQ.Regalona.r1.7BG0026040 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30178310, pistato.v30269610 |
| Apiaceae | Apium graveolens | 4 | Ag10G01011, Ag11G04059, Ag2G02640, Ag3G02334 |
| Arecaceae | Cocos nucifera | 3 | COCNU_04G012230, COCNU_16G005550, COCNU_16G005560 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103702234, gene-LOC103709708 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_05.583.V1.1, AsparagusV1_07.742.V1.1 |
| Asteraceae | Flaveria trinervia | 7 | Ftri15G26681, Ftri17G08124, Ftri18G28221, Ftri6G19576 ... |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G01960.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10013616m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g41200.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB08g004460.2N |
| Casuarinaceae | Casuarina equisetifolia | 3 | Ceq02G0007, Ceq08G0858, Ceq08G2472 |
| Casuarinaceae | Casuarina glauca | 3 | Cgl02G0011, Cgl08G0876, Cgl08G2715 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno04g11850, gene.Cymno05g12940 |
| Hydrocharitaceae | Thalassia testudinum | 3 | gene.Thate01g29570, gene.Thate04g13670, gene.Thate06g06300 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-11937 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG01.829, evm.TU.LG02.1651 |
| Plantaginaceae | Plantago ovata | 3 | Pov_00002578, Pov_00036314, Pov_00040683 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb2G09498, Lb4G25694 |
| Poaceae | Echinochloa crus-galli | 6 | AH02.518, AH05.3062, BH02.536, BH05.3104, CH02.597 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_1AG0011100, gene-QOZ80_1BG0059700 ... |
| Poaceae | Hordeum vulgare | 3 | HORVU.MOREX.r3.1HG0026080.1, HORVU.MOREX.r3.1HG0035540.1 ... |
| Poaceae | Lolium multiflorum | 5 | gene-QYE76_009813, gene-QYE76_010758, gene-QYE76_010826 ... |
| Poaceae | Oryza coarctata | 4 | Oco01G002670, Oco02G002720, Oco09G006430, Oco10G006650 |
| Poaceae | Oryza sativa | 2 | LOC_Os01g07390.1, LOC_Os05g25180.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_03G051800, gene-BS78_09G090100 |
| Poaceae | Puccinellia tenuiflora | 5 | Pt_Chr0207425, Pt_Chr0501299, Pt_Chr0501336, Pt_Chr0501699 ... |
| Poaceae | Sporobolus alterniflorus | 8 | Chr02G019430, Chr03G004920, Chr05G010400, Chr08G000040 ... |
| Poaceae | Thinopyrum elongatum | 3 | Tel1E01G209600, Tel1E01G249500, Tel3E01G166800 |
| Poaceae | Triticum dicoccoides | 5 | gene_TRIDC1AG014440, gene_TRIDC1AG020330 ... |
| Poaceae | Triticum aestivum | 9 | TraesCS1A02G112600.1, TraesCS1A02G137400.1 ... |
| Poaceae | Zea mays | 7 | Zm00001eb065820_P001, Zm00001eb123170_P002 ... |
| Poaceae | Zoysia japonica | 4 | nbis-gene-13102, nbis-gene-29723, nbis-gene-42166 ... |
| Poaceae | Zoysia macrostachya | 2 | Zma_g28041, Zma_g7666 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG16.1538, evm.TU.LG26.125 |
| Posidoniaceae | Posidonia oceanica | 4 | gene.Posoc01g27600, gene.Posoc03g14900, gene.Posoc05g21930 ... |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_1_RagTag.1062, evm.TU.Scaffold_2_RagTag.1288 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-3933, nbisL1-mrna-3948 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-17312, nbisL1-mrna-3777 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-18730, nbisL1-mrna-21145 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000009l.454, evm.TU.utg000016l.873 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00005000, Maker00017068 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-11057, nbisL1-mrna-12356 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-13272, nbisL1-mrna-23204 |
| Salicaceae | Populus euphratica | 5 | populus_peu11541, populus_peu14517, populus_peu14518 ... |
| Solanaceae | Lycium barbarum | 4 | gene-LOC132606710, gene-LOC132611206, gene-LOC132631239 ... |
| Solanaceae | Solanum chilense | 2 | SOLCI003536100, SOLCI005440100 |
| Solanaceae | Solanum pennellii | 3 | gene-LOC107002574, gene-LOC107012506, gene-LOC107023897 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.1610_chr01_-, STRG.27693_chr04_+ |
| Tamaricaceae | Tamarix chinensis | 2 | TC02G2328, TC07G0931 |
| Zosteraceae | Zostera marina | 2 | Zosma01g29080.v3.1, Zosma03g30460.v3.1 |