Basic Information
Locus ID:
Ag3G00894
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Isopentenyl-diphosphate delta-isomerase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 34793223 | 34798296 | - | Ag3G00894 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.80 | 34,505.12 Da | 35.49 | 91.06 | -0.25 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd02885 | IPP_Isomerase | 87 | 274 | 9.26857E-84 | IPR011876 |
| Pfam | PF00293 | NUDIX domain | 120 | 260 | 1.6E-20 | IPR000086 |
| SUPERFAMILY | SSF55811 | Nudix | 89 | 283 | 1.6E-39 | IPR015797 |
| Gene3D | G3DSA:3.90.79.10 | Nucleoside Triphosphate Pyrophosphohydrolase | 60 | 301 | 2.3E-93 | - |
| TIGRFAM | TIGR02150 | IPP_isom_1: isopentenyl-diphosphate delta-isomerase | 90 | 272 | 1.1E-57 | IPR011876 |
| ProSiteProfiles | PS51462 | Nudix hydrolase domain profile. | 119 | 271 | 17.810429 | IPR000086 |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Pathway:
Module:
M00095 (C5 isoprenoid biosynthesis, mevalonate pathway)
M00096 (C5 isoprenoid biosynthesis, non-mevalonate pathway)
M00364 (C10-C20 isoprenoid biosynthesis, bacteria)
M00365 (C10-C20 isoprenoid biosynthesis, archaea)
M00366 (C10-C20 isoprenoid biosynthesis, plants)
M00367 (C10-C20 isoprenoid biosynthesis, non-plant eukaryotes)
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G02780.1 | isopentenyl pyrophosphate:dimethylallyl pyrophosphate isomerase 2. Encodes a protein with isopentenyl diphosphate:dimethylallyl diphosphate isomerase activity. There is genetic evidence that it functions in the mevalonate, but not the MEP biosynthetic pathway. | 0 |
| RefSeq | XP_017243726.1 | PREDICTED: isopentenyl-diphosphate Delta-isomerase I [Daucus carota subsp. sativus] | 0 |
| A0A7C9FSB8 | Isopentenyl-diphosphate Delta-isomerase 1, chloroplastic OS=Cannabis sativa OX=3483 GN=IDI PE=2 SV=1 | 0 | |
| TrEMBL | A0A2L0V4K4 | isopentenyl-diphosphate Delta-isomerase OS=Trachyspermum ammi OX=52570 GN=IDI PE=2 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 180.497925 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 143.270203 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 60.593018 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 67.674561 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 70.92424 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 44.614864 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 44.587845 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 29.953453 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 150.073746 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 141.337509 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 158.951202 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 116.67588 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 124.034897 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 110.382088 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 103.790474 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 119.276505 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 91.622673 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 119.477333 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 98.844902 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 182.321213 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 189.897385 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 124.354454 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 138.797852 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 124.224701 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 113.436127 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 126.740059 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 117.783966 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 95.303154 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 105.498543 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 24.629004 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 18.023682 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 22.471714 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 91.012856 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 178.276489 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 116.063904 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 136.323959 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 68.878639 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 106.599236 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 52.238842 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 41.274529 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 35.294903 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 571.907043 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 161.815704 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 74.352089 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 72.518562 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 558.188843 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 69.529625 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 165.089127 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 141.012878 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 123.549919 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg2661, jg34278, jg9877 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_11783 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah005202 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_4g075310 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg17444, Sbi_jg62093 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg705 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00007530 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl24234, Sgl29414 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000010879, gene:ENSEOMG00000028847 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.4AG0003310, CQ.Regalona.r1.4BG0003440 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30096670, pistato.v30096790 |
| Apiaceae | Apium graveolens | 1 | Ag3G00894 |
| Arecaceae | Cocos nucifera | 1 | COCNU_02G015350 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103696624, gene-LOC103705690 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_02.908.V1.1, AsparagusV1_09.1161.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri17G15914, Ftri18G13559 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT3G02780.1, AT5G16440.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10014571m.g.v1.0, Thhalv10020933m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp3g01810.v2.2, Sp6g27750.v2.2 |
| Brassicaceae | Brassica nigra | 4 | BniB01g061370.2N, BniB07g034380.2N, BniB07g061050.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G2229 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno08g03190, gene.Cymno08g03350 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0393s00007.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g00470 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG03.1770 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00040036 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb3G20044, Lb7G35333 |
| Poaceae | Echinochloa crus-galli | 6 | AH03.3285, AH05.2447, BH03.3463, BH05.2540, CH03.3683 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_5AG0373170, gene-QOZ80_5BG0420440 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.1HG0066250.1, HORVU.MOREX.r3.2HG0138210.1 |
| Poaceae | Lolium multiflorum | 3 | gene-QYE76_013224, gene-QYE76_013244, gene-QYE76_040725 |
| Poaceae | Oryza coarctata | 3 | Oco09G009630, Oco13G009440, Oco14G010010 |
| Poaceae | Oryza sativa | 2 | LOC_Os05g34180.1, LOC_Os07g36190.1 |
| Poaceae | Paspalum vaginatum | 3 | gene-BS78_02G306100, gene-BS78_02G306300 ... |
| Poaceae | Puccinellia tenuiflora | 4 | Pt_Chr0107764, Pt_Chr0306472, Pt_Chr0306515, Pt_Chr0505239 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr01G020520, Chr19G004980, Chr22G008300, Chr27G012320 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel1E01G427600, Tel2E01G400200 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC1AG038690, gene_TRIDC1BG043970 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS1A02G259000.1, TraesCS1B02G269500.1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb288110_P005, Zm00001eb323510_P001 ... |
| Poaceae | Zoysia japonica | 3 | nbis-gene-10713, nbis-gene-13934, nbis-gene-23874 |
| Poaceae | Zoysia macrostachya | 3 | Zma_g27203, Zma_g28246, Zma_g5295 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG08.1352, evm.TU.LG18.1596, evm.TU.LG20.284 ... |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc05g09300, gene.Posoc05g09310 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.48000.3, evm.TU.Scaffold_11_RagTag.1564 ... |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-12780, nbisL1-mrna-29303 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-20518, nbisL1-mrna-6729 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-2238, nbisL1-mrna-22490 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000008l.19, evm.TU.utg000010l.438 |
| Rhizophoraceae | Kandelia obovata | 3 | Maker00001283, Maker00002358, Maker00008617 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-1149, nbisL1-mrna-2300 |
| Rhizophoraceae | Rhizophora mangle | 4 | nbisL1-mrna-20496, nbisL1-mrna-20500, nbisL1-mrna-24222 ... |
| Salicaceae | Populus euphratica | 1 | populus_peu25624 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132614333, gene-LOC132640059 |
| Solanaceae | Solanum chilense | 2 | SOLCI000378300, SOLCI000424900 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107018089, gene-LOC107018548 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_10580, gene_4755 |
| Tamaricaceae | Tamarix chinensis | 1 | TC02G1553 |
| Zosteraceae | Zostera marina | 2 | Zosma02g03480.v3.1, Zosma04g02630.v3.1 |