Basic Information
Locus ID:
Ag11G04078
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Short Name:
MBD5
Description:
methyl-CpG-binding domain-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr11 | 135819961 | 135822339 | - | Ag11G04078 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.08 | 24,913.98 Da | 38.36 | 46.93 | -0.91 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF01429 | Methyl-CpG binding domain | 104 | 174 | 4.4E-13 | IPR001739 |
| SUPERFAMILY | SSF54171 | DNA-binding domain | 102 | 154 | 2.88E-16 | IPR016177 |
| Gene3D | G3DSA:3.30.890.10 | - | 78 | 189 | 1.7E-22 | - |
| ProSiteProfiles | PS50982 | Methyl-CpG-binding domain (MBD) profile. | 96 | 168 | 14.778938 | IPR001739 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 149 | 181 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 131 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 107 | 123 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 29 | - | - |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G59380.1 | methyl-CPG-binding domain 6. Protein containing methyl-CpG-binding domain.Has sequence similarity to human MBD proteins. | 0 |
| RefSeq | XP_017232256.1 | PREDICTED: methyl-CpG-binding domain-containing protein 5-like isoform X2 [Daucus carota subsp. sativus] | 0 |
| Q9LTJ1 | Methyl-CpG-binding domain-containing protein 6 OS=Arabidopsis thaliana OX=3702 GN=MBD6 PE=1 SV=1 | 0 | |
| TrEMBL | A0A166H058 | Mitochondrial pyruvate carrier OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_002216 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 9.683238 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.327287 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 8.141975 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 7.238601 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 7.173908 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 6.475884 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 7.689906 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 5.116292 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 10.419433 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 12.114139 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 14.154116 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 13.319224 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 14.340322 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 10.388954 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 4.589419 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 4.792592 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 6.614117 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 5.245739 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 5.320879 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 6.134785 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 6.553232 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 11.909038 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 8.280249 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 7.516737 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 8.526606 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 8.222128 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 6.310186 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 7.965811 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 8.878078 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 10.990186 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 10.961133 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 11.250883 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 14.811762 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 15.566665 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 15.725908 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 11.1372 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 8.409247 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 11.892741 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 9.220448 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 5.87559 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 6.604408 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 1.996266 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 1.814807 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 5.525799 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 5.158541 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 4.627552 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 5.325884 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 11.158625 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 9.273024 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 11.053604 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg16433, jg8326 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_5889, gene_7033 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah028028, Ah028091 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_7g173840, BVRB_7g174500 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg1759, Sbi_jg1833, Sbi_jg34699, Sbi_jg34773 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg2924, Seu_jg2992 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00003136, GOSA_00003199 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl72960, Sgl73029, Sgl76501, Sgl76569 |
| Amaranthaceae | Chenopodium album | 6 | gene:ENSEOMG00000006886, gene:ENSEOMG00000008236 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.7AG0002260, CQ.Regalona.r1.7AG0002870 ... |
| Anacardiaceae | Pistacia vera | 3 | pistato.v30059830, pistato.v30060300, pistato.v30064800 |
| Apiaceae | Apium graveolens | 6 | Ag10G00503, Ag11G04078, Ag2G00888, Ag5G01164, Ag6G02600 ... |
| Asteraceae | Flaveria trinervia | 3 | Ftri12G20330, Ftri14G28371, Ftri9G24900 |
| Brassicaceae | Arabidopsis thaliana | 3 | AT3G46580.1, AT5G59380.1, AT5G59800.1 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10002683m.g.v1.0, Thhalv10014093m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 3 | Sp5g15120.v2.2, Sp6g21060.v2.2, Sp6g21470.v2.2 |
| Brassicaceae | Brassica nigra | 6 | BniB02g039000.2N, BniB02g039540.2N, BniB05g038890.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq08G2170 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG09.1265, evm.TU.LG09.1331 |
| Plantaginaceae | Plantago ovata | 5 | Pov_00015764, Pov_00026610, Pov_00026612, Pov_00030100 ... |
| Plumbaginaceae | Limonium bicolor | 3 | Lb2G09557, Lb2G14720, Lb6G30440 |
| Poaceae | Oryza coarctata | 1 | Oco15G007290 |
| Poaceae | Oryza sativa | 1 | LOC_Os10g13500.1 |
| Portulacaceae | Portulaca oleracea | 5 | evm.TU.LG03.1866, evm.TU.LG18.231, evm.TU.LG19.863 ... |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.60437.2, evm.TU.60438.2 ... |
| Rhizophoraceae | Carallia pectinifolia | 4 | nbisL1-mrna-24553, nbisL1-mrna-26655, nbisL1-mrna-30184 ... |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-19652, nbisL1-mrna-19677 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-16180, nbisL1-mrna-16181, nbisL1-mrna-16182 |
| Rhizophoraceae | Kandelia candel | 3 | evm.TU.utg000015l.474, evm.TU.utg000015l.496 ... |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00015544 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-13853, nbisL1-mrna-4414 |
| Rhizophoraceae | Rhizophora mangle | 3 | nbisL1-mrna-14995, nbisL1-mrna-20948, nbisL1-mrna-2534 |
| Salicaceae | Populus euphratica | 5 | populus_peu02125, populus_peu02159, populus_peu35641 ... |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132600619, gene-LOC132628577, gene-LOC132643502 |
| Solanaceae | Solanum chilense | 2 | SOLCI000856900, SOLCI001367300 |
| Solanaceae | Solanum pennellii | 4 | gene-LOC107001405, gene-LOC107002913, gene-LOC107004184 ... |
| Tamaricaceae | Reaumuria soongarica | 2 | MSTRG.4135_chr03_-, STRG.4913_chr03_+ |
| Tamaricaceae | Tamarix chinensis | 2 | TC11G0055, TC11G0092 |