Basic Information
Locus ID:
Ag7G01060
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
DNA-directed RNA
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr7 | 88132806 | 88135832 | + | Ag7G01060 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.67 | 25,786.32 Da | 34.31 | 95.63 | -0.33 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF01191 | RNA polymerase Rpb5, C-terminal domain | 149 | 221 | 5.6E-27 | IPR000783 |
| Pfam | PF03871 | RNA polymerase Rpb5, N-terminal domain | 23 | 106 | 2.2E-23 | IPR005571 |
| SUPERFAMILY | SSF53036 | Eukaryotic RPB5 N-terminal domain | 22 | 150 | 4.32E-31 | IPR036710 |
| SUPERFAMILY | SSF55287 | RPB5-like RNA polymerase subunit | 147 | 222 | 1.31E-23 | IPR035913 |
| Gene3D | G3DSA:3.40.1340.10 | - | 19 | 146 | 1.9E-34 | IPR036710 |
| Gene3D | G3DSA:3.90.940.20 | - | 147 | 222 | 5.3E-25 | IPR035913 |
| PIRSF | PIRSF000747 | RPB5 | 17 | 222 | 2.9E-73 | IPR014381 |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Pathway:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G57080.1 | Eukaryotic rpb5 RNA polymerase subunit family protein. Non-catalytic subunit unique to Nuclear DNA-dependent RNA polymerase V; homologous to budding yeast RPB5. | 0 |
| RefSeq | XP_017258117.1 | PREDICTED: DNA-directed RNA polymerase V subunit 5A-like [Daucus carota subsp. sativus] | 0 |
| Q9M1J2 | DNA-directed RNA polymerase V subunit 5A OS=Arabidopsis thaliana OX=3702 GN=NRPE5A PE=1 SV=1 | 0 | |
| TrEMBL | A0A161WU26 | DNA-directed RNA polymerase V subunit 5A OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_020548 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 25.980442 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 18.816463 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 25.166536 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 25.334995 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 23.510015 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 24.159018 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 31.458761 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 24.459311 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 19.10969 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 17.570215 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 20.909193 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 35.539146 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 39.781994 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 37.788525 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 10.76815 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 6.590126 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 9.684679 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 7.273641 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 7.207292 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 8.774162 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 8.722456 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 18.976725 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 15.573458 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 15.872251 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 16.123476 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 11.66307 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 12.025749 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 8.505969 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 10.044361 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 11.011751 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 14.804645 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 10.359588 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 24.183693 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 28.596924 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 22.560488 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 18.982887 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 17.338266 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 16.718544 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 9.785908 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 5.242698 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 5.244157 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 15.943035 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 14.107522 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 9.536057 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 11.101929 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 18.458864 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 10.061894 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 43.034275 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 26.689243 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 19.03227 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg4270 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_24448 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah022125, Ah032408 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_2g041340, BVRB_3g062710 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg30740, Sbi_jg30889, Sbi_jg58387, Sbi_jg58521 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg28267, Seu_jg28394 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00004248, GOSA_00019812 |
| Amaranthaceae | Suaeda glauca | 5 | Sgl63126, Sgl63258, Sgl66273, Sgl67740, Sgl70591 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000015288, gene:ENSEOMG00000028789 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.2AG0004110, CQ.Regalona.r1.2BG0005880 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30166030, pistato.v30188820 |
| Apiaceae | Apium graveolens | 3 | Ag10G02296, Ag7G01060, Ag8G00803 |
| Arecaceae | Cocos nucifera | 1 | COCNU_04G007080 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103720724 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_01.2840.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri11G12225, Ftri12G03514 |
| Brassicaceae | Arabidopsis thaliana | 3 | AT2G41340.1, AT3G54490.1, AT3G57080.1 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10006218m.g.v1.0, Thhalv10011060m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 3 | Sp4g23630.v2.2, Sp5g05500.v2.2, Sp5g07930.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB01g004160.2N, BniB06g065360.2N, BniB08g071810.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G0944 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl04G1056, Cgl04G1070 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno02g17460 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate01g04260 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-4104 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG01.2594, evm.TU.LG02.1973 |
| Plantaginaceae | Plantago ovata | 3 | Pov_00003451, Pov_00017712, Pov_00039367 |
| Poaceae | Echinochloa crus-galli | 7 | AH04.246, AH05.163, AH09.6, BH04.240, BH05.188, CH04.259 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_5AG0380870, gene-QOZ80_5BG0427980 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.4HG0355980.1, HORVU.MOREX.r3.5HG0460760.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_003247, gene-QYE76_065304 |
| Poaceae | Oryza coarctata | 4 | Oco21G000810, Oco22G001650, Oco23G001570, Oco24G001000 |
| Poaceae | Oryza sativa | 2 | LOC_Os11g04730.1, LOC_Os12g04510.1 |
| Poaceae | Paspalum vaginatum | 3 | gene-BS78_05G040800, gene-BS78_K037300, gene-BS78_K047100 |
| Poaceae | Puccinellia tenuiflora | 4 | Pt_Chr0103666, Pt_Chr0103684, Pt_Chr0703084, Pt_Chr0703095 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr07G021580, Chr16G009190 |
| Poaceae | Thinopyrum elongatum | 2 | Tel4E01G206300, Tel5E01G239600 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC4AG029680, gene_TRIDC4BG020720 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS4A02G185400.1, TraesCS4B02G133200.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb093130_P001 |
| Poaceae | Zoysia japonica | 3 | nbis-gene-40149, nbis-gene-46380, nbis-gene-46381 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g25485 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG07.406, evm.TU.LG13.1297, evm.TU.LG15.534 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc02g05450 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_8_RagTag.1466, evm.TU.Scaffold_8_RagTag.166 |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-10169, nbisL1-mrna-8485, nbisL1-mrna-8489 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-17876, nbisL1-mrna-20262 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-17791 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000018l.144, evm.TU.utg000018l.891 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00003216, Maker00003334 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-3114, nbisL1-mrna-9485 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-11436, nbisL1-mrna-18837 |
| Salicaceae | Populus euphratica | 2 | populus_peu04269, populus_peu26250 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132623274 |
| Solanaceae | Solanum chilense | 1 | SOLCI000553000 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107007738, gene-LOC107016042 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.21199_chr08_+, gene_13505 |
| Tamaricaceae | Tamarix chinensis | 1 | TC12G1925 |
| Zosteraceae | Zostera marina | 1 | Zosma04g24970.v3.1 |