Basic Information
Locus ID:
BVRB_5g110800
Species & Taxonomic ID:
Beta vulgaris & 3555
Genome Assembly:
GCA_000511025.2
Short Name:
SCD1
Description:
DENN domain and WD repeat-containing protein SCD1
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 28296360 | 28321344 | - | BVRB_5g110800 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.74 | 132,915.14 Da | 41.29 | 95.28 | -0.11 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 839 | 1135 | 4.57098E-58 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 1017 | 1052 | 0.039 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 935 | 970 | 0.0015 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 839 | 887 | 0.0025 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 897 | 929 | 0.0018 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 1057 | 1093 | 0.055 | IPR001680 |
| Pfam | PF03456 | uDENN domain | 35 | 104 | 4.7E-10 | IPR005113 |
| Pfam | PF02141 | DENN (AEX-3) domain | 125 | 305 | 2.2E-46 | IPR001194 |
| Pfam | PF03455 | dDENN domain | 398 | 448 | 2.4E-7 | IPR005112 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 836 | 1194 | 4.19E-64 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 1021 | 1198 | 2.0E-23 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 800 | 1020 | 6.5E-42 | IPR015943 |
| Gene3D | G3DSA:3.40.50.11500 | - | 203 | 388 | 3.1E-43 | IPR043153 |
| Gene3D | G3DSA:3.30.450.200 | - | 1 | 177 | 3.1E-7 | - |
| SMART | SM00320 | WD40_4 | 1055 | 1094 | 1.3E-5 | IPR001680 |
| SMART | SM00320 | WD40_4 | 836 | 887 | 0.036 | IPR001680 |
| SMART | SM00320 | WD40_4 | 1154 | 1193 | 0.62 | IPR001680 |
| SMART | SM00320 | WD40_4 | 932 | 970 | 2.4E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 1099 | 1136 | 96.0 | IPR001680 |
| SMART | SM00800 | uDENN_cls | 1 | 105 | 5.5E-14 | IPR005113 |
| SMART | SM00799 | DENN_cls | 123 | 307 | 1.0E-64 | IPR001194 |
| SMART | SM00320 | WD40_4 | 973 | 1012 | 0.0026 | IPR001680 |
| SMART | SM00320 | WD40_4 | 892 | 929 | 4.5E-5 | IPR001680 |
| SMART | SM00801 | dDENN_cls | 367 | 435 | 5.1E-14 | IPR005112 |
| SMART | SM00320 | WD40_4 | 1015 | 1052 | 9.6E-4 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 939 | 973 | 9.941962 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 899 | 938 | 11.510997 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 899 | 929 | 9.230148 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 1062 | 1094 | 10.675542 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 1062 | 1094 | 8.966513 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 984 | 1021 | 9.104886 | IPR001680 |
| ProSiteProfiles | PS50211 | Tripartite DENN domain profile. | 19 | 443 | 61.919701 | IPR037516 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 1022 | 1061 | 10.007177 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 939 | 979 | 13.081652 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 957 | 971 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 999 | 1013 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 1180 | 1194 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 1039 | 1053 | 5.9E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 957 | 971 | 5.9E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 916 | 930 | 5.9E-6 | IPR020472 |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G49040.1 | stomatal cytokinesis defective / SCD1 protein (SCD1). Encodes soluble protein containing N-terminal DENN domain and eight C-terminal WD-40 repeats. Involved in cytokinesis of guard mother cells and leaf epidermal cells. The overall growth and development of mutant plants is severely affected, they are smaller than wt, with defects in seedling development, leaf expansion and flower morphology which renders the mutant conditionally sterile. | 0 |
| RefSeq | XP_010677974.2 | - | 0 |
| Q8RXA7 | DENN domain and WD repeat-containing protein SCD1 OS=Arabidopsis thaliana OX=3702 GN=SCD1 PE=1 SV=1 | 0 | |
| TrEMBL | A0A0K9QGX6 | UDENN domain-containing protein OS=Spinacia oleracea OX=3562 GN=SOVF_180550 PE=4 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 | 1 | jg26987 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_22578 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah002039 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_5g110800, BVRB_5g110810 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg28100, Sbi_jg32435 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg7325 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00015748 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl53780, Sgl53785, Sgl59043, Sgl59048 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000006812, gene:ENSEOMG00000022168 ... |
| Amaranthaceae | Chenopodium quinoa | 5 | CQ.Regalona.r1.2AG0010700, CQ.Regalona.r1.3AG0015290 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30146250 |
| Apiaceae | Apium graveolens | 1 | Ag8G00689 |
| Arecaceae | Cocos nucifera | 1 | COCNU_06G001720 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103712861 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_05.1767.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri5G21468 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G49040.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10011186m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp1g35950.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB04g061410.2N, BniB04g061420.2N, BniB07g008560.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq03G2407 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl03G2546 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno16g01280 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0074s00025.v1.0, Dusal.1115s00001.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate03g18560 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG10.393 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00033367 |
| Plumbaginaceae | Limonium bicolor | 4 | Lb7G33581, Lb7G33582, Lb7G33899, Lb7G33920 |
| Poaceae | Echinochloa crus-galli | 3 | AH02.2105, BH02.2171, CH02.2332 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_1AG0021780, gene-QOZ80_1BG0071730 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.3HG0267340.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_053426 |
| Poaceae | Oryza coarctata | 1 | Oco01G013100 |
| Poaceae | Oryza sativa | 1 | LOC_Os01g39380.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_03G171900 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0603071, Pt_Chr0603098 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr05G016920, Chr08G009050 |
| Poaceae | Thinopyrum elongatum | 1 | Tel3E01G361500 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC3AG030960, gene_TRIDC3BG035530 |
| Poaceae | Triticum aestivum | 3 | TraesCS3A02G204600.3, TraesCS3B02G236700.5 ... |
| Poaceae | Zea mays | 1 | Zm00001eb160220_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-29429 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g8107 |
| Portulacaceae | Portulaca oleracea | 3 | evm.TU.LG02.258, evm.TU.LG02.259, evm.TU.LG09.1496 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc09g09950 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_4_RagTag.777 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-28585 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-21414 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-1599 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000008l.502 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00000915 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-14401 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-19268 |
| Salicaceae | Populus euphratica | 3 | populus_peu28383, populus_peu29836, populus_peu29949 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132633292 |
| Solanaceae | Solanum chilense | 1 | SOLCI006253400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107014520 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.14190_chr08_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC05G0860 |
| Zosteraceae | Zostera marina | 2 | Zosma05g14010.v3.1, Zosma05g14020.v3.1 |