Basic Information
Locus ID:
Ag4G02763
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Short Name:
RDR6
Description:
Probably involved in the RNA silencing pathway and required for the generation of small interfering RNAs (siRNAs)
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 309669368 | 309673256 | - | Ag4G02763 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.40 | 86,391.51 Da | 33.49 | 80.99 | -0.46 |
Protein Domain:
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G49500.1 | RNA-dependent RNA polymerase 6. Encodes RNA-dependent RNA polymerase. Involved in trans-acting siRNA and other siRNA biogenesis. Required for post-transcriptional gene silencing and natural virus resistance. | 0 |
| RefSeq | XP_017227616.1 | PREDICTED: RNA-dependent RNA polymerase 6-like [Daucus carota subsp. sativus] | 0 |
| Q9SG02 | RNA-dependent RNA polymerase 6 OS=Arabidopsis thaliana OX=3702 GN=RDR6 PE=1 SV=1 | 0 | |
| TrEMBL | A0A175YC55 | RNA-dependent RNA polymerase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_031550 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 7.54069 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 7.267791 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 6.158397 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 6.119305 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 6.228782 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 4.697561 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 4.781325 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 4.035741 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 1.948124 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 2.045174 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 1.876394 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 2.022783 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 2.127583 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 1.854527 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.991977 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0.944817 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0.858922 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 2.484423 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 1.63004 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 1.595502 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 1.957074 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 1.819161 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 2.373939 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 1.565286 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 2.158137 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 3.072801 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 3.018632 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 2.248346 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 2.323494 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.141154 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.100853 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.041753 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0.874313 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 1.52869 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 1.123669 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0.848148 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.210753 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.086608 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 1.99364 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0.928582 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.505732 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 0.922578 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 1.778779 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 3.832129 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 4.459256 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 1.29931 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 4.935483 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 2.108562 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 2.199423 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 1.341898 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg36597 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_25176 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah034694 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_2g030230 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg21597, Sbi_jg22222 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg13451, Seu_jg16148 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00008751 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl62696, Sgl67257, Sgl67317 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000016847, gene:ENSEOMG00000021381 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.1BG0021290, CQ.Regalona.r1.2AG0022890 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30249990 |
| Apiaceae | Apium graveolens | 2 | Ag4G01694, Ag4G02763 |
| Arecaceae | Cocos nucifera | 1 | COCNU_04G007470 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103698619 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_05.2720.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri3G12470 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G49500.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10010107m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp5g12590.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB05g048150.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G2336 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G2541 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno18g01100 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate03g02000 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG07.1443 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00011863 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb2G12670 |
| Poaceae | Echinochloa crus-galli | 7 | AH02.1857, AH08.647, AH08.649, BH02.1871, BH08.702, CH08.785 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_1AG0019150, gene-QOZ80_1BG0069190 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.3HG0320600.1, HORVU.MOREX.r3.7HG0643980.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_017605 |
| Poaceae | Oryza coarctata | 2 | Oco01G011720, Oco02G011970 |
| Poaceae | Oryza sativa | 1 | LOC_Os01g34350.1 |
| Poaceae | Paspalum vaginatum | 3 | gene-BS78_03G130300, gene-BS78_07G082900 ... |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0603278, Pt_Chr0604877 |
| Poaceae | Sporobolus alterniflorus | 6 | Chr05G015150, Chr16G002770, Chr16G002780, Chr16G002800 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel3E01G793400 |
| Poaceae | Triticum dicoccoides | 3 | gene_TRIDC3AG069340, gene_TRIDC3BG078680 ... |
| Poaceae | Triticum aestivum | 2 | TraesCS3B02G543300.1, TraesCS3D02G489400.1 |
| Poaceae | Zea mays | 2 | Zm00001eb132680_P001, Zm00001eb389140_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-21349, nbis-gene-48600 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g10526, Zma_g23769 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG03.2513, evm.TU.LG17.1557 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc07g12150 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_10_RagTag.850 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-13633 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-12435 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-9096 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000004l.164 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00004000 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-3780 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-7869 |
| Salicaceae | Populus euphratica | 2 | populus_peu04766, populus_peu12891 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132635634, gene-LOC132636213 |
| Solanaceae | Solanum chilense | 2 | SOLCI004086100, SOLCI005617800 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107017736, gene-LOC107029057 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_15411 |
| Tamaricaceae | Tamarix chinensis | 2 | TC01G1524, TC03G1590 |
| Zosteraceae | Zostera marina | 2 | Zosma02g02980.v3.1, Zosma557g00070.v3.1 |