Basic Information
Locus ID:
nbisL1-mrna-12071
Species & Taxonomic ID:
Rhizophora apiculata & 106626
Genome Assembly:
GCA_037832385.1
Description:
methyl-CpG-binding domain-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 8582231 | 8593713 | + | nbisL1-mrna-12071 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.11 | 245,045.28 Da | 48.61 | 79.95 | -0.39 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd15489 | PHD_SF | 85 | 131 | 5.56054E-10 | - |
| CDD | cd15519 | PHD1_Lid2p_like | 1289 | 1333 | 2.14547E-25 | - |
| Pfam | PF01429 | Methyl-CpG binding domain | 263 | 316 | 9.2E-10 | IPR001739 |
| Pfam | PF00628 | PHD-finger | 1288 | 1334 | 4.3E-12 | IPR019787 |
| Pfam | PF15613 | Williams-Beuren syndrome DDT (WSD), D-TOX E motif | 1651 | 1746 | 1.8E-6 | IPR028941 |
| Pfam | PF00628 | PHD-finger | 85 | 133 | 4.1E-9 | IPR019787 |
| Pfam | PF15612 | WSTF, HB1, Itc1p, MBD9 motif 1 | 1372 | 1411 | 7.1E-10 | IPR028942 |
| SUPERFAMILY | SSF47370 | Bromodomain | 1124 | 1242 | 1.06E-7 | IPR036427 |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 80 | 143 | 9.3E-13 | IPR011011 |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 1273 | 1337 | 5.76E-17 | IPR011011 |
| SUPERFAMILY | SSF54171 | DNA-binding domain | 265 | 316 | 9.16E-6 | IPR016177 |
| Gene3D | G3DSA:3.30.160.360 | - | 405 | 481 | 5.2E-6 | - |
| Gene3D | G3DSA:3.30.890.10 | - | 266 | 325 | 2.2E-5 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 48 | 140 | 6.6E-10 | IPR013083 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1288 | 1335 | 2.3E-19 | IPR013083 |
| Gene3D | G3DSA:1.20.920.10 | - | 1131 | 1251 | 3.5E-12 | IPR036427 |
| SMART | SM00249 | PHD_3 | 1288 | 1334 | 2.9E-13 | IPR001965 |
| SMART | SM00249 | PHD_3 | 84 | 132 | 4.2E-8 | IPR001965 |
| ProSiteProfiles | PS51542 | FYR domain FYRN motif profile. | 404 | 457 | 18.42268 | IPR003888 |
| ProSiteProfiles | PS50016 | Zinc finger PHD-type profile. | 82 | 134 | 9.890499 | IPR019787 |
| ProSiteProfiles | PS50016 | Zinc finger PHD-type profile. | 1286 | 1336 | 10.1397 | IPR019787 |
| ProSiteProfiles | PS50014 | Bromodomain profile. | 1179 | 1227 | 8.7176 | IPR001487 |
| ProSitePatterns | PS01359 | Zinc finger PHD-type signature. | 1289 | 1333 | - | IPR019786 |
| ProSitePatterns | PS01359 | Zinc finger PHD-type signature. | 85 | 131 | - | IPR019786 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 2199 | 2216 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 2176 | 2216 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 2176 | 2192 | - | - |
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_021668999.1 | methyl-CpG-binding domain-containing protein 9 isoform X1 [Hevea brasiliensis] | 0 |
| Q9SGH2 | Methyl-CpG-binding domain-containing protein 9 OS=Arabidopsis thaliana OX=3702 GN=MBD9 PE=2 SV=1 | 0 | |
| TrEMBL | A0A2P2KDH6 | Uncharacterized protein MANES_15G182800 OS=Rhizophora mucronata OX=61149 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 |