Basic Information
Locus ID:
gene_7838
Species & Taxonomic ID:
Mesembryanthemum crystallinum & 3544
Genome Assembly:
Koichi Toyokura Assembly
Description:
methyl-CpG-binding domain-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| Super-Scaffold_12_Chr_6 | 27081140 | 27106342 | - | gene_7838 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.65 | 250,516.61 Da | 50.35 | 79.50 | -0.47 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd04369 | Bromodomain | 1221 | 1282 | 5.00087E-5 | - |
| CDD | cd15519 | PHD1_Lid2p_like | 1329 | 1374 | 2.65389E-26 | - |
| Pfam | PF00439 | Bromodomain | 1218 | 1272 | 3.8E-5 | IPR001487 |
| Pfam | PF15612 | WSTF, HB1, Itc1p, MBD9 motif 1 | 1414 | 1453 | 1.8E-9 | IPR028942 |
| Pfam | PF01429 | Methyl-CpG binding domain | 300 | 389 | 9.5E-11 | IPR001739 |
| Pfam | PF00628 | PHD-finger | 1329 | 1375 | 6.2E-12 | IPR019787 |
| Pfam | PF02791 | DDT domain | 805 | 836 | 2.9E-7 | IPR018501 |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 1318 | 1383 | 6.42E-18 | IPR011011 |
| SUPERFAMILY | SSF54171 | DNA-binding domain | 301 | 349 | 5.23E-5 | IPR016177 |
| SUPERFAMILY | SSF47370 | Bromodomain | 1165 | 1284 | 2.09E-7 | IPR036427 |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 89 | 143 | 1.67E-8 | IPR011011 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 74 | 139 | 1.2E-6 | IPR013083 |
| Gene3D | G3DSA:3.30.160.360 | - | 446 | 555 | 2.0E-6 | - |
| Gene3D | G3DSA:1.20.920.10 | - | 1173 | 1287 | 6.1E-13 | IPR036427 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1288 | 1385 | 4.5E-21 | IPR013083 |
| Gene3D | G3DSA:3.30.890.10 | - | 303 | 360 | 3.0E-5 | - |
| SMART | SM00249 | PHD_3 | 1329 | 1375 | 5.7E-13 | IPR001965 |
| SMART | SM00249 | PHD_3 | 95 | 135 | 7.5E-5 | IPR001965 |
| ProSiteProfiles | PS50982 | Methyl-CpG-binding domain (MBD) profile. | 299 | 368 | 9.24695 | IPR001739 |
| ProSiteProfiles | PS50014 | Bromodomain profile. | 1220 | 1268 | 8.9522 | IPR001487 |
| ProSiteProfiles | PS50016 | Zinc finger PHD-type profile. | 1327 | 1377 | 10.202 | IPR019787 |
| ProSiteProfiles | PS51543 | FYR domain FYRC motif profile. | 598 | 743 | 12.846536 | IPR003889 |
| ProSiteProfiles | PS51542 | FYR domain FYRN motif profile. | 445 | 498 | 18.169119 | IPR003888 |
| ProSitePatterns | PS01359 | Zinc finger PHD-type signature. | 96 | 134 | - | IPR019786 |
| ProSitePatterns | PS01359 | Zinc finger PHD-type signature. | 1330 | 1374 | - | IPR019786 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 2221 | 2264 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1592 | 1626 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 2247 | 2264 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 56 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 7 | 31 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1943 | 1964 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 2224 | 2246 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1593 | 1609 | - | - |
Gene Ontology
Molecular Function:
Cellular Component:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G01460.1 | methyl-CPG-binding domain 9. Encodes a protein with a methyl-CpG-binding domain. Has sequence similarity to human MBD proteins. Involved in the modification of the FLC chromatin acetylation state to affect FLC expression. Mutants show an early flowering, and enhanced shoot branching phenotypes. | 0 |
| RefSeq | XP_021866769.1 | methyl-CpG-binding domain-containing protein 9 isoform X2 [Spinacia oleracea] | 0 |
| Q9SGH2 | Methyl-CpG-binding domain-containing protein 9 OS=Arabidopsis thaliana OX=3702 GN=MBD9 PE=2 SV=1 | 0 | |
| TrEMBL | A0A0J8B3Q1 | Methyl-CpG-binding domain-containing protein 9 OS=Beta vulgaris subsp. vulgaris OX=3555 GN=BVRB_005110 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| No sample metadata found. | |||||||
Network
No network data available for this species.
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg9458 |
| Aizoaceae | Mesembryanthemum crystallinum | 3 | gene_1020, gene_22895, gene_7838 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah033754 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g144700 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg20195, Sbi_jg44291 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg17727 |
| Amaranthaceae | Suaeda aralocaspica | 3 | GOSA_00021410, GOSA_00021411, GOSA_00021412 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl63885, Sgl68373 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000014836, gene:ENSEOMG00000022800 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.2AG0009520, CQ.Regalona.r1.2BG0010050 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30022160, pistato.v30222520 |
| Apiaceae | Apium graveolens | 3 | Ag1G01335, Ag6G00334, Ag9G00488 |
| Arecaceae | Cocos nucifera | 2 | COCNU_01G005850, COCNU_11G011740 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103699157, gene-LOC103719046, gene-LOC120110853 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_01.181.V1.1, AsparagusV1_05.3155.V1.1 ... |
| Asteraceae | Flaveria trinervia | 2 | Ftri5G02703, Ftri8G10451 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G01460.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10019872m.g.v1.0, Thhalv10022520m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g00610.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB07g061780.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G1812 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl02G1888 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno01g03670 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0253s00014.v1.0, Dusal.0866s00006.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g16600 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-2246 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG05.408 |
| Plantaginaceae | Plantago ovata | 6 | Pov_00023332, Pov_00023333, Pov_00034366, Pov_00041413 ... |
| Plumbaginaceae | Limonium bicolor | 1 | Lb7G33460 |
| Poaceae | Echinochloa crus-galli | 2 | AH07.671, BH07.799 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_2AG0104700, gene-QOZ80_2BG0158090 |
| Poaceae | Hordeum vulgare | 3 | HORVU.MOREX.r3.5HG0535640.1.CDS1 ... |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_021251 |
| Poaceae | Oryza coarctata | 2 | Oco03G005200, Oco04G004730 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g09920.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_04G069800, gene-BS78_04G070000 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0202209 |
| Poaceae | Sporobolus alterniflorus | 1 | Chr06G033370 |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G341600 |
| Poaceae | Triticum dicoccoides | 17 | gene_TRIDC3AG075090, gene_TRIDC3AG075100 ... |
| Poaceae | Triticum aestivum | 12 | TraesCS3A02G530300.1.cds1, TraesCS4A02G324900.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb206240_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-33507, nbis-gene-44107 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g12363, Zma_g15108 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG04.1394, evm.TU.LG05.1917, evm.TU.LG16.1091 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g07460 |
| Rhizophoraceae | Bruguiera sexangula | 8 | evm.TU.36567.1, evm.TU.45229.1, evm.TU.45229.2 ... |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-23084, nbisL1-mrna-2318, nbisL1-mrna-2631 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-10399, nbisL1-mrna-11668 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-14785, nbisL1-mrna-3047 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000013l.179, evm.TU.utg000019l.96 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00001944, Maker00006668 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-12071, nbisL1-mrna-7085 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-15841 |
| Salicaceae | Populus euphratica | 1 | populus_peu24422 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132641362 |
| Solanaceae | Solanum chilense | 1 | SOLCI003618100 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107020445 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_4646, gene_4811 |
| Tamaricaceae | Tamarix chinensis | 2 | TC02G2325, TC02G3239 |
| Zosteraceae | Zostera marina | 1 | Zosma03g04350.v3.1 |