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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| Taxon OID | 3300022739 Open in IMG/M |
| Scaffold ID | Ga0228711_1029036 Open in IMG/M |
| Source Dataset Name | Root nodule microbial communities from Medicago polymorpha collected in Santa Monica, California, United States - brown nodules |
| Source Dataset Category | Metagenome |
| Source Dataset Use Policy | Open |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Sequencing Status | Permanent Draft |
| Scaffold Components | |
|---|---|
| Scaffold Length (bps) | 3100 |
| Total Scaffold Genes | 5 (view) |
| Total Scaffold Genes with Ribosome Binding Sites (RBS) | 3 (60.00%) |
| Novel Protein Genes | 4 (view) |
| Novel Protein Genes with Ribosome Binding Sites (RBS) | 3 (75.00%) |
| Associated Families | 3 |
| Taxonomy | |
|---|---|
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Fabales → Fabaceae → Papilionoideae → 50 kb inversion clade → NPAAA clade → Hologalegina → IRL clade → Trifolieae | (Source: UniRef50) |
| Source Dataset Ecosystem |
|---|
| Host-Associated → Plants → Roots → Nodule → Unclassified → Root Nodules → Root Nodule Microbial Communities Of Legume Samples Collected From Usa, Mexico And Botswana |
| Source Dataset Sampling Location | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location Name | USA: California | |||||||
| Coordinates | Lat. (o) | 34.0136 | Long. (o) | -118.4673 | Alt. (m) | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F002299 | Metagenome | 573 | Y |
| F003802 | Metagenome | 467 | Y |
| F021933 | Metagenome | 216 | Y |
| Protein ID | Family | RBS | Sequence |
|---|---|---|---|
| Ga0228711_10290361 | F003802 | N/A | VSTAIDLEFIPYQAQRLLKNWTLRLPWIFQFIGSEVYNIVDKTFPLPLLLMEGYVWFRGRSLLFHGINGSRLRPILDRSGGSAAAGRLMLLLVYDCF |
| Ga0228711_10290362 | F002299 | AGG | VTSSRDRSLALSGRLAVSVATAKRLPSAKDSLLTPDARTSKAFSDGHMLLNTDSYGISTTPRSNNPSLDVSF |
| Ga0228711_10290363 | F021933 | GAGG | MVSRPELAIPRNKWNLTPTHFGQERRVRRSGKDDAAFGFRLPLSHHQPQKDTSKERLFDRGVVLIPYESVLRSMCPSEKALEVRASGVRSESFALGKRFAVAKLTPTLLPRAKLRPRLLVTSGCLFRHPRSKSAPARIS |
| Ga0228711_10290365 | F002299 | AGG | VTSSRGRSLALGDRLAVSLATPQRLPRAKDSLLTPDARTSKAFSDGHMLLTIDSYGISMTPRSNNTSMDVSFWD |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |