Basic Information
Locus ID:
Ag1G00474
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
LysM domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr1 | 75812137 | 75814837 | + | Ag1G00474 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.53 | 28,389.14 Da | 42.66 | 91.30 | -0.25 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00118 | LysM | 109 | 153 | 1.43748E-6 | IPR018392 |
| Pfam | PF01476 | LysM domain | 112 | 154 | 5.7E-6 | IPR018392 |
| Pfam | PF00646 | F-box domain | 39 | 73 | 3.1E-6 | IPR001810 |
| SUPERFAMILY | SSF81383 | F-box domain | 31 | 101 | 7.98E-12 | IPR036047 |
| SUPERFAMILY | SSF54106 | LysM domain | 110 | 155 | 4.45E-6 | IPR036779 |
| Gene3D | G3DSA:3.10.350.10 | LysM domain | 110 | 159 | 4.6E-13 | IPR036779 |
| Gene3D | G3DSA:1.20.1280.50 | - | 18 | 109 | 8.5E-9 | - |
| SMART | SM00256 | fbox_2 | 39 | 79 | 7.7E-5 | IPR001810 |
| SMART | SM00257 | LysM_2 | 110 | 154 | 0.0048 | IPR018392 |
| ProSiteProfiles | PS51782 | LysM domain profile. | 109 | 153 | 11.381714 | IPR018392 |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G55000.1 | peptidoglycan-binding LysM domain-containing protein. | 0 |
| RefSeq | XP_017224951.1 | PREDICTED: F-box protein At1g55000 [Daucus carota subsp. sativus] | 0 |
| Q9FZ32 | F-box protein At1g55000 OS=Arabidopsis thaliana OX=3702 GN=At1g55000 PE=1 SV=1 | 0 | |
| TrEMBL | A0A175YDT1 | LysM domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_029409 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 36.612507 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 35.938801 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 33.737236 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 35.404022 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 33.498024 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 41.436867 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 32.645943 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 36.190948 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 56.438267 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 55.564594 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 59.757133 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 60.79623 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 51.189281 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 43.663933 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 46.120579 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 40.691902 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 49.670124 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 38.325161 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 35.464787 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 26.268154 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 29.394306 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 47.785881 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 44.348988 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 42.932762 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 39.005283 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 43.528225 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 45.618061 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 34.908634 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 28.50629 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 47.767559 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 41.869019 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 37.365177 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 75.898743 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 52.047581 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 72.083267 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 66.896843 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 77.944962 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 71.500099 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 54.402309 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 32.535267 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 33.024525 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 26.305922 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 57.420753 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 123.500122 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 104.195923 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 27.513405 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 100.007996 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 49.355423 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 50.411179 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 56.196056 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg29933 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_10435 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah005792 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_4g081420 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg17071, Sbi_jg61621 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg345 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00008410, GOSA_00008411 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl24554, Sgl24555, Sgl29717 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000010210, gene:ENSEOMG00000030682 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.4AG0008590, CQ.Regalona.r1.4BG0008740 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30083480, pistato.v30084180 |
| Apiaceae | Apium graveolens | 1 | Ag1G00474 |
| Arecaceae | Cocos nucifera | 1 | COCNU_05G004970 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103715745 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_02.1377.V1.1, AsparagusV1_08.1989.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri14G32450 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G55000.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10023646m.g.v1.0, Thhalv10024156m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | SpUn0004_0090.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB02g060210.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G1203 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno14g09400 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0050s00031.v1.0, Dusal.0530s00001.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate08g14200 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG03.2439 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00017847, Pov_00039259 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb1G06690, Lb3G20356 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.939, BH01.1075, CH01.1121 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0220170, gene-QOZ80_3BG0265370 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0335820.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_062719 |
| Poaceae | Oryza coarctata | 1 | Oco06G021770 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g49250.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G114400 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0104825 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr01G007640, Chr04G026420, Chr07G025420, Chr12G029750 |
| Poaceae | Thinopyrum elongatum | 4 | Tel3E01G700400, Tel4E01G071100, Tel4E01G071500 ... |
| Poaceae | Triticum dicoccoides | 3 | gene_TRIDC4AG042790, gene_TRIDC4BG006180 ... |
| Poaceae | Triticum aestivum | 4 | TraesCS4A02G275700.1, TraesCS4B02G038000.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb054020_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-15832 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g3013 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG18.1230, evm.TU.LG20.654 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g16840 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.60387.5, evm.TU.60387.6, evm.TU.60388.5 |
| Rhizophoraceae | Carallia pectinifolia | 4 | nbisL1-mrna-2771, nbisL1-mrna-2773, nbisL1-mrna-2811 ... |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-7200 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-13692 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000009l.64 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00006096 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-12970 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-16169 |
| Salicaceae | Populus euphratica | 2 | populus_peu13407, populus_peu15738 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132645912 |
| Solanaceae | Solanum chilense | 1 | SOLCI006609300 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107008578 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_7224 |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G0918 |
| Zosteraceae | Zostera marina | 1 | Zosma03g29600.v3.1 |