Basic Information
Locus ID:
Ag10G01648
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
DNA polymerase epsilon
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr10 | 194754357 | 194757512 | + | Ag10G01648 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.06 | 18,202.18 Da | 58.75 | 76.54 | -0.71 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00808 | Histone-like transcription factor (CBF/NF-Y) and archaeal histone | 11 | 80 | 5.0E-8 | IPR003958 |
| SUPERFAMILY | SSF47113 | Histone-fold | 11 | 135 | 1.42E-23 | IPR009072 |
| Gene3D | G3DSA:1.10.20.10 | Histone, subunit A | 4 | 152 | 1.8E-32 | IPR009072 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 105 | 148 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Pathway:
ko00230 (Purine metabolism)
map00230 (Purine metabolism)
ko00240 (Pyrimidine metabolism)
map00240 (Pyrimidine metabolism)
ko01100 (Metabolic pathways)
map01100 (Metabolic pathways)
ko03030 (DNA replication)
map03030 (DNA replication)
ko03410 (Base excision repair)
map03410 (Base excision repair)
ko03420 (Nucleotide excision repair)
map03420 (Nucleotide excision repair)
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G27470.1 | nuclear factor Y, subunit B11. | 0 |
| RefSeq | XP_017238864.1 | PREDICTED: DNA polymerase epsilon subunit 3 [Daucus carota subsp. sativus] | 0 |
| Q9ZQH2 | DNA polymerase II subunit B4 OS=Arabidopsis thaliana OX=3702 GN=NF-YB11 PE=1 SV=1 | 0 | |
| TrEMBL | A0A166APF1 | CBFD_NFYB_HMF domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_010346 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 0.316562 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 1.390864 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 0.204135 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 0.362359 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 0.364563 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 0.560668 | 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 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 34.289703 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 39.223278 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 41.170387 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 38.435238 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 30.637077 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 24.475801 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 5.963903 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 2.868194 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 11.492973 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 9.953362 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 10.575381 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 10.813287 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 12.679245 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 13.547015 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 10.983671 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 19.661472 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 21.136326 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 11.510503 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 6.926726 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 7.455811 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 11.449322 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.965397 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 2.321978 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.869973 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0.541853 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 15.010956 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 5.19631 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 2.268827 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.937776 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.498916 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 17.479877 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 6.082286 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 5.037971 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 33.445103 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 31.231199 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 13.999804 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 21.769579 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 25.599302 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 16.574102 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 17.044052 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 19.138378 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 15.752618 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg36008 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_6812 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah028978 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_7g176050 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg26937, Sbi_jg33625 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg8324 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00002980 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl73183, Sgl76717 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000004960, gene:ENSEOMG00000036389 ... |
| Amaranthaceae | Chenopodium quinoa | 1 | CQ.Regalona.r1.9BG0004700 |
| Anacardiaceae | Pistacia vera | 7 | pistato.v30034310, pistato.v30056490, pistato.v30173560 ... |
| Apiaceae | Apium graveolens | 3 | Ag10G01648, Ag11G04376, Ag2G01912 |
| Arecaceae | Cocos nucifera | 1 | scaffold003604G000010 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103696670, gene-LOC120105394 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_04.697.V1.1, AsparagusV1_07.2324.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri17G21729 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G27470.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10017865m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g10260.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB06g016460.2N, BniB08g031950.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq05G1812 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl05G1803 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno07g00410 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g17990 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG09.666 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00015799 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb3G20212, Lb3G20216 |
| Poaceae | Echinochloa crus-galli | 3 | AH03.1106, BH03.1265, CH03.1418 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_6AG0525320, gene-QOZ80_6BG0478970 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0332040.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_006839 |
| Poaceae | Oryza coarctata | 2 | Oco17G012150, Oco18G012130 |
| Poaceae | Oryza sativa | 1 | LOC_Os09g39490.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_02G132400 |
| Poaceae | Puccinellia tenuiflora | 3 | Pt_Chr0700264, Pt_Chr0700452, Pt_Chr0700459 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr14G008420, Chr21G008550 |
| Poaceae | Thinopyrum elongatum | 1 | Tel4E01G021900 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC3BG004500, gene_TRIDC4AG046680 ... |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G306400.1, TraesCS4B02G008300.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb308280_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-31830 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g32037 |
| Portulacaceae | Portulaca oleracea | 1 | evm.TU.LG19.1430 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc03g19890, gene.Posoc05g21950 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_13_RagTag.503 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-30603 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-8005 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-15894 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000015l.270 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00015671 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-4185 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-15287 |
| Salicaceae | Populus euphratica | 1 | populus_peu36893 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132600595 |
| Solanaceae | Solanum chilense | 1 | SOLCI000469900 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107003250 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.26291_chr11_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC03G1763 |