Basic Information
Locus ID:
BH06.1277
Species & Taxonomic ID:
Echinochloa crus-galli & 90397
Genome Assembly:
GWHBDNR00000000
Description:
WD40 repeats
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| BH06 | 13307760 | 13316827 | + | BH06.1277 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.97 | 135,337.84 Da | 46.76 | 80.06 | -0.36 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF16529 | WD40 region of Ge1, enhancer of mRNA-decapping protein | 190 | 283 | 1.5E-9 | IPR032401 |
| Pfam | PF16529 | WD40 region of Ge1, enhancer of mRNA-decapping protein | 355 | 504 | 5.5E-9 | IPR032401 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 211 | 505 | 7.1E-24 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 194 | 504 | 1.7E-25 | IPR015943 |
| Gene3D | G3DSA:1.10.220.100 | - | 1169 | 1255 | 1.6E-23 | IPR044938 |
| SMART | SM00320 | WD40_4 | 393 | 439 | 81.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 350 | 390 | 3.5E-4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 231 | 271 | 9.9E-6 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 357 | 390 | 8.808332 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 238 | 275 | 9.361965 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 357 | 390 | 10.475033 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 238 | 280 | 11.544415 | IPR001680 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 705 | 719 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 796 | 827 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 592 | 782 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 637 | 659 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 38 | 68 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 596 | 633 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 748 | 762 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 663 | 680 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 800 | 827 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 75 | - | - |
| Coils | Coil | Coil | 834 | 854 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G13300.1 | Transducin/WD40 repeat-like superfamily protein. Encodes VCS (VARICOSE). Involved in mRNA decapping. VCS forms a mRNA decapping complex with DCP1 (At1g08370) and DCP2 (At5g13570). Unlike DCP2, VCS itself does not have mRNA decapping activity in vitro. DCP1, DCP2 and VCS colocalize in cytoplasmic loci, which are putative Arabidopsis mRNA processing bodies. Null mutants of DCP1, DCP2, and VCS accumulate capped mRNAs with a reduced degradation rate. These mutants also share a similar lethal phenotype at the seedling cotyledon stage, with disorganized veins, swollen root hairs, and altered epidermal cell morphology. VCS is also required for leaf development. | 1.01E-298 |
| RefSeq | XP_004965298.1 | varicose-related protein isoform X5 [Setaria italica] | 0 |
| Q9LTT8 | Enhancer of mRNA-decapping protein 4 OS=Arabidopsis thaliana OX=3702 GN=VCS PE=1 SV=1 | 9.75E-298 | |
| TrEMBL | A0A3L6PDX6 | Varicose-related protein-like isoform X5 OS=Panicum miliaceum OX=4540 GN=C2845_PM10G09980 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| No sample metadata found. | |||||||
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg20217, jg24642 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_7098 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah009135 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_4g091120 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg18599, Sbi_jg37024 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg4871 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00017262, GOSA_00017263 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl23632, Sgl28833 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000011001, gene:ENSEOMG00000030169 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.2BG0000180, CQ.Regalona.r1.4BG0026690 |
| Anacardiaceae | Pistacia vera | 3 | pistato.v30066310, pistato.v30151180, pistato.v30151450 |
| Apiaceae | Apium graveolens | 2 | Ag2G02308, Ag3G02426 |
| Arecaceae | Cocos nucifera | 2 | COCNU_01G013150, COCNU_11G006200 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103695987, gene-LOC103696209, gene-LOC120111829 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_01.484.V1.1, AsparagusV1_05.2169.V1.1 |
| Asteraceae | Flaveria trinervia | 3 | Ftri14G07956, Ftri15G07998, Ftri7G09129 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT3G13290.1, AT3G13300.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10019901m.g.v1.0, Thhalv10019903m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp3g11490.v2.2, Sp3g11500.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB01g051920.2N, BniB01g059160.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq01G1552, Ceq02G1433 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl01G1714, Cgl02G1477 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno04g07070 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0061s00002.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 3 | gene.Thate03g20720, gene.Thate04g27310, gene.Thate08g11560 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-5478 |
| Nitrariaceae | Nitraria sibirica | 3 | evm.TU.LG05.2099, evm.TU.LG12.1301, evm.TU.LG12.1303 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00037982 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb0G37320, Lb2G11789 |
| Poaceae | Echinochloa crus-galli | 7 | AH06.1226, AH07.3276, BH06.1277, BH07.3095, CH06.1410 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_2AG0143850, gene-QOZ80_2BG0199260 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.6HG0610930.1, HORVU.MOREX.r3.7HG0674380.1 |
| Poaceae | Oryza coarctata | 4 | Oco03G020230, Oco04G020930, Oco11G007830, Oco12G007840 |
| Poaceae | Oryza sativa | 2 | LOC_Os02g49090.1, LOC_Os06g19660.1 |
| Poaceae | Paspalum vaginatum | 3 | gene-BS78_04G258900, gene-BS78_10G126000, gene-BS78_K043000 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0203578, Pt_Chr0404397 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr06G003400, Chr09G021350, Chr10G001330, Chr11G017420 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel6E01G522200, Tel7E01G400300 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC6AG043700, gene_TRIDC6BG051300 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS6A02G286100.3, TraesCS6B02G314800.3 ... |
| Poaceae | Zea mays | 3 | Zm00001eb189120_P001, Zm00001eb253140_P001 ... |
| Poaceae | Zoysia japonica | 3 | nbis-gene-21986, nbis-gene-45616, nbis-gene-8875 |
| Poaceae | Zoysia macrostachya | 3 | Zma_g14306, Zma_g17051, Zma_g31778 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG01.272, evm.TU.LG02.661, evm.TU.LG04.481 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g16370 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_7_RagTag.1417, evm.TU.Scaffold_8_RagTag.360 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-20075, nbisL1-mrna-20216 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-13554, nbisL1-mrna-2818 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-13364, nbisL1-mrna-13365, nbisL1-mrna-17964 |
| Rhizophoraceae | Kandelia candel | 4 | evm.TU.utg000002l.239, evm.TU.utg000018l.762 ... |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00011642 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-9063 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-12103 |
| Salicaceae | Populus euphratica | 8 | populus_peu00036, populus_peu10494, populus_peu17074 ... |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132617622, gene-LOC132627692 |
| Solanaceae | Solanum chilense | 2 | SOLCI005594100, SOLCI006743000 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107002190, gene-LOC107025807 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.24580_chr08_-, gene_17897 |
| Tamaricaceae | Tamarix chinensis | 2 | TC05G2540, TC06G0575 |
| Zosteraceae | Zostera marina | 1 | Zosma01g39580.v3.1 |